Examples with ConstraintViolation org.molgenis.validation.ConstraintViolation used on opensource projects

Example 11 with ConstraintViolation

use of org.molgenis.validation.ConstraintViolation in project molgenis by molgenis.

the class RepositoryValidationDecorator method validateEntityValueReferences.

private void validateEntityValueReferences(Entity entity, ValidationResource validationResource) {
    validationResource.getRefAttrs().forEach(refAttr -> {
        HugeSet<Object> refEntityIds = validationResource.getRefEntitiesIds().get(refAttr.getRefEntity().getId());
        Iterable<Entity> refEntities;
        if (isSingleReferenceType(refAttr)) {
            Entity refEntity = entity.getEntity(refAttr.getName());
            if (refEntity != null) {
                refEntities = singleton(refEntity);
            } else {
                refEntities = emptyList();
            }
        } else {
            refEntities = entity.getEntities(refAttr.getName());
        }
        for (Entity refEntity : refEntities) {
            if (!refEntityIds.contains(refEntity.getIdValue())) {
                boolean selfReference = entity.getEntityType().getId().equals(refAttr.getRefEntity().getId());
                if (!(selfReference && entity.getIdValue().equals(refEntity.getIdValue()))) {
                    String message = String.format("Unknown xref value '%s' for attribute '%s' of entity '%s'.", DataConverter.toString(refEntity.getIdValue()), refAttr.getName(), getName());
                    ConstraintViolation constraintViolation = new ConstraintViolation(message, (long) validationResource.getRow());
                    validationResource.addViolation(constraintViolation);
                }
            }
        }
        // only do if self reference
        if (validationResource.isSelfReferencing()) {
            validationResource.addRefEntityId(getName(), entity.getIdValue());
        }
    });
}

Example 12 with ConstraintViolation

use of org.molgenis.validation.ConstraintViolation in project molgenis by molgenis.

the class EntityAttributesValidator method createConstraintViolation.

private static ConstraintViolation createConstraintViolation(Entity entity, Attribute attribute, EntityType entityType) {
    String message = format("Invalid %s value '%s' for attribute '%s' of entity '%s'.", attribute.getDataType().toString().toLowerCase(), entity.get(attribute.getName()), attribute.getLabel(), entityType.getId());
    Range range = attribute.getRange();
    if (range != null) {
        message += format("Value must be between %d and %d", range.getMin(), range.getMax());
    }
    Integer maxLength = attribute.getMaxLength();
    if (maxLength != null) {
        message += format("Value must be less than or equal to %d characters", maxLength);
    }
    return new ConstraintViolation(message);
}

Example 13 with ConstraintViolation

use of org.molgenis.validation.ConstraintViolation in project molgenis by molgenis.

the class EntityTypeValidator method validateOwnAttributes.

/**
 * Validates that this entity: <br>
 * 1) has attributes defined at all <br>
 * 2) doesn't have attributes with the same name (also in the parent entities)<br>
 * 3) doesn't have attributes with a non-existing parent <br>
 *
 * @param entityType entity meta data
 * @throws MolgenisValidationException if one of the above rules is violated
 */
static void validateOwnAttributes(EntityType entityType) {
    // Validate that entity has attributes
    if (stream(entityType.getAllAttributes()).collect(toList()).isEmpty()) {
        throw new MolgenisValidationException(new ConstraintViolation(format("EntityType [%s] does not contain any attributes. Did you use the correct package+entity name combination in both the entities as well as the attributes sheet?", entityType.getId())));
    }
    // Validate that entity does not contain multiple attributes with the same name
    Multimap<String, Attribute> attrMultiMap = stream(entityType.getAllAttributes()).collect(MultimapCollectors.toArrayListMultimap(Attribute::getName, Function.identity()));
    attrMultiMap.keySet().forEach(attrName -> {
        if (attrMultiMap.get(attrName).size() > 1) {
            throw new MolgenisValidationException(new ConstraintViolation(format("EntityType [%s] contains multiple attributes with name [%s]", entityType.getId(), attrName)));
        }
    });
    // Validate that all parent attributes actually exist
    Set<String> attributeIds = stream(entityType.getAllAttributes()).map(Attribute::getIdentifier).collect(toSet());
    stream(entityType.getAllAttributes()).filter(attr -> attr.getParent() != null).forEach(attr -> {
        if (!attributeIds.contains(attr.getParent().getIdentifier())) {
            throw new MolgenisValidationException(new ConstraintViolation(format("Attribute [%s] of EntityType [%s] has a non-existing parent attribute [%s]", attr.getName(), entityType.getId(), attr.getParent().getName())));
        }
    });
}

Example 14 with ConstraintViolation

use of org.molgenis.validation.ConstraintViolation in project molgenis by molgenis.

the class TagValidator method validate.

/**
 * Validates tag
 *
 * @param tag tag
 * @throws MolgenisValidationException if tag is not valid
 */
@SuppressWarnings("MethodMayBeStatic")
public void validate(Tag tag) {
    String relationIri = tag.getRelationIri();
    Relation relation = Relation.forIRI(relationIri);
    if (relation == null) {
        throw new MolgenisValidationException(new ConstraintViolation(format("Unknown relation IRI [%s]", relationIri)));
    }
}

Example 15 with ConstraintViolation

use of org.molgenis.validation.ConstraintViolation in project molgenis by molgenis.

the class JobScheduler method schedule.

/**
 * Schedule a {@link ScheduledJob} with a cron expression defined in the entity.
 *
 * <p>Reschedules job if the job already exists.
 *
 * <p>If active is false, it unschedules the job
 *
 * @param scheduledJob the {@link ScheduledJob} to schedule
 */
public synchronized void schedule(ScheduledJob scheduledJob) {
    String id = scheduledJob.getId();
    String cronExpression = scheduledJob.getCronExpression();
    String name = scheduledJob.getName();
    // Validate cron expression
    if (!CronExpression.isValidExpression(cronExpression)) {
        throw new MolgenisValidationException(singleton(new ConstraintViolation("Invalid cronexpression '" + cronExpression + "'", null)));
    }
    try {
        // If already scheduled, remove it from the quartzScheduler
        if (quartzScheduler.checkExists(new JobKey(id, SCHEDULED_JOB_GROUP))) {
            unschedule(id);
        }
        // If not active, do not schedule it
        if (!scheduledJob.isActive()) {
            return;
        }
        // Schedule with 'cron' trigger
        Trigger trigger = newTrigger().withIdentity(id, SCHEDULED_JOB_GROUP).withSchedule(cronSchedule(cronExpression)).build();
        schedule(scheduledJob, trigger);
        LOG.info("Scheduled Job '{}' with trigger '{}'", name, trigger);
    } catch (SchedulerException e) {
        LOG.error("Error schedule job", e);
        throw new ScheduledJobException("Error schedule job", e);
    }
}