@Test
public void testAtt() {
String nsUri = "nsUri";
String prefix = "prefix";
String localName = "localName";
String value = "value";
Attribute att = new Attribute(nsUri, localName, value);
Assert.assertEquals(nsUri, att.getNamespace());
Assert.assertEquals(localName, att.getName());
Assert.assertEquals(value, att.getValue());
String nsUri2 = "nsUri2";
String prefix2 = "prefix2";
String localName2 = "localName2";
String value2 = "value2";
att.setNsURI(nsUri2);
att.setName(localName2);
att.setValue(value2);
Assert.assertEquals(nsUri2, att.getNamespace());
Assert.assertEquals(localName2, att.getName());
Assert.assertEquals(value2, att.getValue());
}
/**
* An attribute will have the following 4bytes words :
*
* <ul>
* <li>0th word : index of namespace uri in StringIndexTable, or 0xFFFFFFFF for default NS
* <li>1st word : index of attribute name in StringIndexTable
* <li>2nd word : index of attribute value, or 0xFFFFFFFF if value is a typed value
* <li>3rd word : value type
* <li>4th word : resource id value
* </ul>
*/
private Attribute parseAttribute() {
final int attrNSIdx = getLEWord(mParserOffset);
final int attrNameIdx = getLEWord(mParserOffset + (1 * WORD_SIZE));
final int attrValueIdx = getLEWord(mParserOffset + (2 * WORD_SIZE));
final int attrType = getLEWord(mParserOffset + (3 * WORD_SIZE));
final int attrData = getLEWord(mParserOffset + (4 * WORD_SIZE));
final Attribute attr = new Attribute();
attr.setName(getString(attrNameIdx));
if (attrNSIdx == 0xFFFFFFFF) {
attr.setNamespace(null);
attr.setPrefix(null);
} else {
String uri = getString(attrNSIdx);
if (mNamespaces.containsKey(uri)) {
attr.setNamespace(uri);
attr.setPrefix(mNamespaces.get(uri));
}
}
if (attrValueIdx == 0xFFFFFFFF) {
attr.setValue(getAttributeValue(attrType, attrData));
} else {
attr.setValue(getString(attrValueIdx));
}
return attr;
}
/**
* Called by Java2XML
*
* @return Attributes with enough information to be saved to a project file
*/
public List getAttributes() {
ArrayList persistentAttributes = new ArrayList();
for (int i = 0; i < super.getAttributeCount(); i++) {
// if(super.getAttributeType(i)==AttributeType.GEOMETRY) continue;
Attribute attribute = new Attribute();
attribute.setName(super.getAttributeName(i));
attribute.setType(super.getAttributeType(i).toString());
attribute.setColumn(getColumnByAttribute(super.getAttributeName(i)));
attribute.setAccessType((String) attributeAccess.get(i));
persistentAttributes.add(attribute);
}
return persistentAttributes;
}
/**
* Updates attributes list on node selection change in the tags tree. Loads attributes of the
* selected node into the attributes list. Just clears attributes if no node is selected.
*
* @param e
*/
public void onTagChange(TreeSelectionEvent e) {
if (e.getNewLeadSelectionPath() != null) {
TreePath path = e.getNewLeadSelectionPath();
attributes.clear();
if (path.getPathCount() >= 1) {
DefaultMutableTreeNode node = (DefaultMutableTreeNode) path.getLastPathComponent();
Tag tag = (Tag) node.getUserObject();
for (String name : tag.getAttributes().keySet()) {
Attribute attr = new Attribute();
attr.setName(name);
attr.setValue(tag.getAttribute(name));
attributes.add(attr);
}
}
}
}
/**
* Merge in another section
*
* @param section the section to be merged with this one.
* @throws ManifestException if the sections cannot be merged.
*/
public void merge(Section section) throws ManifestException {
if (name == null && section.getName() != null
|| name != null && !(name.equalsIgnoreCase(section.getName()))) {
throw new ManifestException("Unable to merge sections with different names");
}
Enumeration e = section.getAttributeKeys();
Attribute classpathAttribute = null;
while (e.hasMoreElements()) {
String attributeName = (String) e.nextElement();
Attribute attribute = section.getAttribute(attributeName);
if (attributeName.equalsIgnoreCase(ATTRIBUTE_CLASSPATH)) {
if (classpathAttribute == null) {
classpathAttribute = new Attribute();
classpathAttribute.setName(ATTRIBUTE_CLASSPATH);
}
Enumeration cpe = attribute.getValues();
while (cpe.hasMoreElements()) {
String value = (String) cpe.nextElement();
classpathAttribute.addValue(value);
}
} else {
// the merge file always wins
storeAttribute(attribute);
}
}
if (classpathAttribute != null) {
// the merge file *always* wins, even for Class-Path
storeAttribute(classpathAttribute);
}
// add in the warnings
Enumeration warnEnum = section.warnings.elements();
while (warnEnum.hasMoreElements()) {
warnings.addElement(warnEnum.nextElement());
}
}
private AttributeStatement buildAttributeStatement(Map<String, String> claims) {
AttributeStatement attStmt = null;
if (claims != null) {
attStmt = new AttributeStatementBuilder().buildObject();
Iterator<String> ite = claims.keySet().iterator();
for (int i = 0; i < claims.size(); i++) {
Attribute attrib = new AttributeBuilder().buildObject();
String claimUri = ite.next();
attrib.setName(claimUri);
// look
// https://wiki.shibboleth.net/confluence/display/OpenSAML/OSTwoUsrManJavaAnyTypes
XSStringBuilder stringBuilder =
(XSStringBuilder) Configuration.getBuilderFactory().getBuilder(XSString.TYPE_NAME);
XSString stringValue =
stringBuilder.buildObject(AttributeValue.DEFAULT_ELEMENT_NAME, XSString.TYPE_NAME);
stringValue.setValue(claims.get(claimUri));
attrib.getAttributeValues().add(stringValue);
attStmt.getAttributes().add(attrib);
}
}
return attStmt;
}
public void setUp() throws Exception {
os = ObjectStoreFactory.getObjectStore("os.unittest");
item = new Item();
item.setClassName("Department");
item.setImplementations("Broke");
item.setIdentifier("1");
Attribute attr1 = new Attribute();
attr1.setName("name");
attr1.setValue("Department1");
item.addAttribute(attr1);
Attribute attr2 = new Attribute();
attr2.setName("debt");
attr2.setValue("10");
item.addAttribute(attr2);
Reference ref1 = new Reference();
ref1.setName("address");
ref1.setRefId("2");
item.addReference(ref1);
ReferenceList col1 = new ReferenceList();
col1.setName("employees");
col1.addRefId("3");
col1.addRefId("4");
item.addCollection(col1);
dbItem = new org.intermine.model.fulldata.Item();
dbItem.setClassName("Department");
dbItem.setImplementations("Broke");
dbItem.setIdentifier("1");
dbItem.setId(1001);
org.intermine.model.fulldata.Attribute dbAttr1 = new org.intermine.model.fulldata.Attribute();
dbAttr1.setName("name");
dbAttr1.setValue("Department1");
dbAttr1.setItem(dbItem);
dbItem.addAttributes(dbAttr1);
org.intermine.model.fulldata.Attribute dbAttr2 = new org.intermine.model.fulldata.Attribute();
dbAttr2.setName("debt");
dbAttr2.setValue("10");
dbAttr2.setItem(dbItem);
dbItem.addAttributes(dbAttr2);
org.intermine.model.fulldata.Reference dbRef1 = new org.intermine.model.fulldata.Reference();
dbRef1.setName("address");
dbRef1.setRefId("2");
dbRef1.setItem(dbItem);
dbItem.addReferences(dbRef1);
org.intermine.model.fulldata.ReferenceList dbCol1 =
new org.intermine.model.fulldata.ReferenceList();
dbCol1.setName("employees");
dbCol1.setRefIds("3 4");
dbCol1.setItem(dbItem);
dbItem.addCollections(dbCol1);
referenceList = new ReferenceList();
referenceList.setName("employees");
referenceList.setRefIds(Arrays.asList("3", "4"));
dbReferenceList = new org.intermine.model.fulldata.ReferenceList();
dbReferenceList.setName("employees");
dbReferenceList.setRefIds("3 4");
departmentProxy = new ProxyReference(os, 1, Department.class);
dbReferenceList.proxyItem(departmentProxy);
// dbReferenceList.setId(2002);
}
void insertAttribute(String line) {
int indexL, indexR;
String type;
// Treating string and declaring a string tokenizer
line.replace("{", " {");
// line.replace ("["," [");
// System.out.println (" > Processing line: "+ line );
StringTokenizer st = new StringTokenizer(line, " [{\t");
// Disregarding the first token. It is @attribute
st.nextToken();
Attribute at = new Attribute();
at.setName(st.nextToken().trim());
// System.out.println ( " > Attribute name: "+ at.getName() );
// Next action depends on the type of attribute: continuous or nominal
if (!st.hasMoreTokens()) { // Parsing a nominal attribute with no definition of values
// System.out.println (" > Parsing nominal attribute without values ");
at.setType(Attribute.NOMINAL);
} else if (line.indexOf("{") != -1) { // Parsing a nominal attribute
// System.out.println (" > Parsing nominal attribute with values: "+line );
at.setType(Attribute.NOMINAL);
at.setFixedBounds(true);
indexL = line.indexOf("{");
indexR = line.indexOf("}");
// System.out.println ( " > The Nominal values are: " + line.substring( indexL+1, indexR)
// );
StringTokenizer st2 = new StringTokenizer(line.substring(indexL + 1, indexR), ",");
while (st2.hasMoreTokens()) {
at.addNominalValue(st2.nextToken().trim());
}
} else { // Parsing an integer or real
type = st.nextToken().trim();
// System.out.println (" > Parsing "+ type + " attributes");
if (type.equalsIgnoreCase("integer")) at.setType(Attribute.INTEGER);
if (type.equalsIgnoreCase("real")) at.setType(Attribute.REAL);
indexL = line.indexOf("[");
indexR = line.indexOf("]");
if (indexL != -1 && indexR != -1) {
// System.out.println ( " > The real values are: " + line.substring( indexL+1, indexR)
// );
StringTokenizer st2 = new StringTokenizer(line.substring(indexL + 1, indexR), ",");
double min = Double.parseDouble(st2.nextToken().trim());
double max = Double.parseDouble(st2.nextToken().trim());
at.setBounds(min, max);
}
}
Attributes.addAttribute(at);
} // end insertAttribute