@BeforeTest
public void createEntity() {
entityType = when(mock(EntityType.class).getName()).thenReturn("Source").getMock();
Attribute idAttr = when(mock(Attribute.class).getName()).thenReturn("Identifier").getMock();
when(idAttr.getDataType()).thenReturn(INT);
Attribute intAttr = when(mock(Attribute.class).getName()).thenReturn("Int").getMock();
when(intAttr.getDataType()).thenReturn(INT);
Attribute stringAttr = when(mock(Attribute.class).getName()).thenReturn("String").getMock();
when(stringAttr.getDataType()).thenReturn(STRING);
Attribute nonNumericStringAttr =
when(mock(Attribute.class).getName()).thenReturn("NonNumericString").getMock();
when(nonNumericStringAttr.getDataType()).thenReturn(STRING);
Attribute longAttr = when(mock(Attribute.class).getName()).thenReturn("Long").getMock();
when(longAttr.getDataType()).thenReturn(LONG);
when(entityType.getIdAttribute()).thenReturn(idAttr);
when(entityType.getAttribute("Identifier")).thenReturn(idAttr);
when(entityType.getAttribute("Int")).thenReturn(intAttr);
when(entityType.getAttribute("String")).thenReturn(stringAttr);
when(entityType.getAttribute("NonNumericString")).thenReturn(nonNumericStringAttr);
when(entityType.getAttribute("Long")).thenReturn(longAttr);
entity = new DynamicEntity(entityType);
entity.set("Int", 1);
entity.set("String", "12");
entity.set("Long", 10L);
entity.set("NonNumericString", "Hello World!");
}
private static Attribute getQueryRuleAttribute(QueryRule queryRule, EntityType entityType) {
String queryRuleField = queryRule.getField();
if (queryRuleField == null) {
throw new MolgenisValidationException(
new ConstraintViolation(
format(
"Query rule with operator [%s] is missing required field",
queryRule.getOperator().toString())));
}
Attribute attr = entityType.getAttribute(queryRuleField);
if (attr == null) {
throw new MolgenisValidationException(
new ConstraintViolation(
format(
"Query rule field [%s] refers to unknown attribute in entity type [%s]",
queryRuleField, entityType.getName())));
}
return attr;
}
/**
* Validate is value is of the type defined by the attribute data type.
*
* @param attrName attribute name
* @param value value (must be of the type defined by the attribute data type.)
*/
protected void validateValueType(String attrName, Object value) {
if (value == null) {
return;
}
Attribute attr = entityType.getAttribute(attrName);
if (attr == null) {
throw new UnknownAttributeException(format("Unknown attribute [%s]", attrName));
}
AttributeType dataType = attr.getDataType();
switch (dataType) {
case BOOL:
if (!(value instanceof Boolean)) {
throw new MolgenisDataException(
format(
"Value [%s] is of type [%s] instead of [%s] for attribute: [%s]",
value.toString(),
value.getClass().getSimpleName(),
Boolean.class.getSimpleName(),
attrName));
}
break;
case CATEGORICAL:
// expected type is FileMeta. validation is not possible because molgenis-data does not
// depend on molgenis-file
case FILE:
case XREF:
if (!(value instanceof Entity)) {
throw new MolgenisDataException(
format(
"Value [%s] is of type [%s] instead of [%s] for attribute: [%s]",
value.toString(),
value.getClass().getSimpleName(),
Entity.class.getSimpleName(),
attrName));
}
break;
case CATEGORICAL_MREF:
case MREF:
case ONE_TO_MANY:
if (!(value instanceof Iterable)) {
throw new MolgenisDataException(
format(
"Value [%s] is of type [%s] instead of [%s] for attribute: [%s]",
value.toString(),
value.getClass().getSimpleName(),
Iterable.class.getSimpleName(),
attrName));
}
break;
case COMPOUND:
throw new IllegalArgumentException(
format("Unexpected data type [%s] for attribute: [%s]", dataType.toString(), attrName));
case DATE:
case DATE_TIME:
if (!(value instanceof java.util.Date)) {
throw new MolgenisDataException(
format(
"Value [%s] is of type [%s] instead of [%s] for attribute: [%s]",
value.toString(),
value.getClass().getSimpleName(),
java.util.Date.class.getSimpleName(),
attrName));
}
break;
case DECIMAL:
if (!(value instanceof Double)) {
throw new MolgenisDataException(
format(
"Value [%s] is of type [%s] instead of [%s] for attribute: [%s]",
value.toString(),
value.getClass().getSimpleName(),
Double.class.getSimpleName(),
attrName));
}
break;
case EMAIL:
case ENUM:
case HTML:
case HYPERLINK:
case SCRIPT:
case STRING:
case TEXT:
if (!(value instanceof String)) {
throw new MolgenisDataException(
format(
"Value [%s] is of type [%s] instead of [%s] for attribute: [%s]",
value.toString(),
value.getClass().getSimpleName(),
String.class.getSimpleName(),
attrName));
}
break;
case INT:
if (!(value instanceof Integer)) {
throw new MolgenisDataException(
format(
"Value [%s] is of type [%s] instead of [%s] for attribute: [%s]",
value.toString(),
value.getClass().getSimpleName(),
Integer.class.getSimpleName(),
attrName));
}
break;
case LONG:
if (!(value instanceof Long)) {
throw new MolgenisDataException(
format(
"Value [%s] is of type [%s] instead of [%s] for attribute: [%s]",
value.toString(),
value.getClass().getSimpleName(),
Long.class.getSimpleName(),
attrName));
}
break;
default:
throw new RuntimeException(format("Unknown data type [%s]", dataType.toString()));
}
}