/**
* Copy constructor. Adds all cells of the given alignment.
*
* @param alignment the alignment to copy
*/
public DefaultAlignment(Alignment alignment) {
// Since the cells came out of another alignment just pass addCell
for (Cell cell : alignment.getCells()) {
/*
* But copy the cell as it is not immutable (things like
* transformation mode and priority may change)
*/
internalAdd(new DefaultCell(cell)); // XXX is this working properly
// for BaseAlignmentCells?
}
baseAlignments.putAll(alignment.getBaseAlignments());
idToPropertyFunction.putAll(alignment.getCustomPropertyFunctions());
idToBaseFunction.putAll(alignment.getBasePropertyFunctions());
}
/** Test for date extraction function in alignment */
@Test
public void testDateExtraction() {
Collection<? extends Cell> cells = alignment.getCells();
Iterator<? extends Cell> it = cells.iterator();
Cell cell = null;
while (it.hasNext()) {
Cell temp = it.next();
if (temp.getTransformationIdentifier()
.equals("eu.esdihumboldt.cst.functions.string.dateextraction")) {
cell = temp;
break;
}
}
ListMultimap<String, ParameterValue> params = cell.getTransformationParameters();
List<ParameterValue> values = params.get("dateFormat");
assertEquals(1, values.size());
String date = values.get(0).as(String.class);
assertEquals("yyyy-MM-dd HH:mm:ss", date);
}
/** Test for centroid function in alignment3 */
@Test
public void testCentroid1() {
Collection<? extends Cell> cells = alignment5.getCells();
Iterator<? extends Cell> it = cells.iterator();
Cell cell = null;
while (it.hasNext()) {
Cell temp = it.next();
if (temp.getTransformationIdentifier()
.equals("eu.esdihumboldt.cst.functions.geometric.centroid")) {
cell = temp;
break;
}
}
// test if there is only one source and one target
assertEquals(1, cell.getSource().size());
assertEquals(1, cell.getTarget().size());
List<? extends Entity> list = cell.getTarget().get(null);
assertEquals(1, list.size());
Entity ent = list.get(0);
String name = ent.getDefinition().getDefinition().getDisplayName();
assertEquals("referencePoint", name);
}
/** Test for ordinates to point function in alignment5 */
@Test
public void testOrdinatesToPoint1() {
Collection<? extends Cell> cells = alignment5.getCells();
Iterator<? extends Cell> it = cells.iterator();
Cell cell = null;
while (it.hasNext()) {
Cell temp = it.next();
if (temp.getTransformationIdentifier()
.equals("eu.esdihumboldt.cst.functions.geometric.ordinates_to_point")) {
cell = temp;
break;
}
}
ListMultimap<String, ? extends Entity> src = cell.getSource();
// the parameters were moved to the source entities with the appropriate
// names so get the source entities with name "X"/"Y"
Entity srcX = src.get("X").get(0);
Entity srcY = src.get("Y").get(0);
// check if the source entity has the correct value
assertEquals("HOCHWERT", srcX.getDefinition().getDefinition().getDisplayName());
assertEquals("RECHTSWERT", srcY.getDefinition().getDefinition().getDisplayName());
}
/** Test for network expansion function in alignment4 */
@Test
public void testNetworkExpansion1() {
Collection<? extends Cell> cells = alignment4.getCells();
Iterator<? extends Cell> it = cells.iterator();
Cell cell = null;
while (it.hasNext()) {
Cell temp = it.next();
if (temp.getTransformationIdentifier()
.equals("eu.esdihumboldt.cst.functions.geometric.networkexpansion")) {
cell = temp;
break;
}
}
ListMultimap<String, ParameterValue> params = cell.getTransformationParameters();
List<ParameterValue> values = params.get("bufferWidth");
assertEquals(1, values.size());
// size is always 1
String temp = values.get(0).as(String.class);
assertEquals("0.005", temp);
}
/** Test for formatted string function in alignment5 */
@Test
public void testFormattedString3() {
Collection<? extends Cell> cells = alignment5.getCells();
Iterator<? extends Cell> it = cells.iterator();
Cell cell = null;
while (it.hasNext()) {
Cell temp = it.next();
if (temp.getTransformationIdentifier().equals("eu.esdihumboldt.hale.align.formattedstring")) {
cell = temp;
break;
}
}
assertNotNull(cell);
ListMultimap<String, ParameterValue> params = cell.getTransformationParameters();
List<ParameterValue> values = params.get("pattern");
assertEquals(1, values.size());
// size is 1
assertEquals("{Grundbuch}:{Nummer}:{Einlage}", values.get(0).getValue());
}
/** Test for assign function in alignment2 */
@Test
@Ignore
// because now NilReasonFunction also produces assign cells
public void testAssign2() {
Collection<? extends Cell> cells = alignment2.getCells();
Iterator<? extends Cell> it = cells.iterator();
List<Cell> assignCells = new ArrayList<Cell>();
while (it.hasNext()) {
Cell temp = it.next();
if (temp.getTransformationIdentifier().equals("eu.esdihumboldt.hale.align.assign")) {
assignCells.add(temp);
}
}
// test all cells that have an assign function
for (int i = 0; i < assignCells.size(); i++) {
Cell cell = assignCells.get(i);
ListMultimap<String, ParameterValue> params = cell.getTransformationParameters();
List<ParameterValue> values = params.get("value");
assertEquals(1, values.size());
// size is always 1
String temp = values.get(0).as(String.class);
// test cell #1
if (i == 0) {
assertEquals("manMade", temp);
}
// test cell #2
if (i == 1) {
assertEquals("false", temp);
}
// test cell #3
if (i == 2) {
assertEquals("2009-12-23 12:13:14", temp);
}
// test cell #4
if (i == 3) {
assertEquals("m", temp);
}
}
// check if all cells with an assign function were tested
assertEquals(4, assignCells.size());
}
/** Test for mathematical expression in alignment */
@Test
public void testMathematicalExpression() {
Collection<? extends Cell> cells = alignment.getCells();
Iterator<? extends Cell> it = cells.iterator();
Cell cell = null;
while (it.hasNext()) {
Cell temp = it.next();
if (temp.getTransformationIdentifier()
.equals("eu.esdihumboldt.cst.functions.numeric.mathexpression")) {
cell = temp;
break;
}
}
ListMultimap<String, ParameterValue> params = cell.getTransformationParameters();
List<ParameterValue> values = params.get("expression");
// test the amount and the correctness of the parameter
assertEquals(1, values.size());
String date = values.get(0).as(String.class);
assertEquals("income * age/10", date);
// test the amount and the correctness of source properties
ListMultimap<String, ? extends Entity> src = cell.getSource();
// all source properties should be named "var" so we test if both lists
// have the same size
List<? extends Entity> srcCells = src.get("var");
assertEquals(2, src.size());
assertEquals(2, srcCells.size());
// since we have now the right amount of source properties we can now
// test the correctness of their names
Entity srcCell1 = srcCells.get(0);
Entity srcCell2 = srcCells.get(1);
String name1 = srcCell1.getDefinition().getDefinition().getDisplayName();
String name2 = srcCell2.getDefinition().getDefinition().getDisplayName();
assertEquals("age", name1);
assertEquals("income", name2);
}
/** test for the inspire identifier function in alignment5 */
@Test
public void testIdentifier() {
Collection<? extends Cell> cells = alignment5.getCells();
Iterator<? extends Cell> it = cells.iterator();
Cell cell = null;
while (it.hasNext()) {
Cell temp = it.next();
if (temp.getTransformationIdentifier()
.equals("eu.esdihumboldt.cst.functions.inspire.identifier")) {
cell = temp;
break;
}
}
ListMultimap<String, ParameterValue> params = cell.getTransformationParameters();
List<ParameterValue> country = params.get("countryName");
List<ParameterValue> provider = params.get("providerName");
List<ParameterValue> product = params.get("productName");
List<ParameterValue> version = params.get("version");
List<ParameterValue> versionNilReason = params.get("versionNilReason");
// check if all parameters were set once
assertEquals(1, country.size());
assertEquals(1, provider.size());
assertEquals(1, product.size());
assertEquals(1, version.size());
assertEquals(1, versionNilReason.size());
// now test if they have correct values
assertEquals("at", country.get(0).getValue());
assertEquals("BEV", provider.get(0).getValue());
assertEquals("humboldt-sample-transformed-data-CadastralParcels", product.get(0).getValue());
assertEquals("", version.get(0).getValue());
assertEquals("unknown", versionNilReason.get(0).getValue());
// check if all parameters were tested
assertEquals(5, params.size());
}
/** Test if the cell count is correct. */
@Test
public void testCellCount() {
Collection<? extends Cell> cells = alignment.getCells();
Collection<? extends Cell> cells2 = alignment2.getCells();
Collection<? extends Cell> cells3 = alignment3.getCells();
Collection<? extends Cell> cells4 = alignment4.getCells();
Collection<? extends Cell> cells5 = alignment5.getCells();
Collection<? extends Cell> cells6 = alignment6.getCells();
Collection<? extends Cell> cells7 = alignment7.getCells();
assertEquals(4, cells.size());
assertEquals(11, cells2.size());
assertEquals(33, cells3.size());
assertEquals(18, cells4.size());
assertEquals(51, cells5.size());
assertEquals(2, cells6.size());
assertEquals(2, cells7.size());
}
/** Test for network expansion function in alignment5 */
@Test
public void testNetworkExpansion2() {
Collection<? extends Cell> cells = alignment5.getCells();
Iterator<? extends Cell> it = cells.iterator();
List<Cell> networkCells = new ArrayList<Cell>();
while (it.hasNext()) {
Cell temp = it.next();
if (temp.getTransformationIdentifier()
.equals("eu.esdihumboldt.cst.functions.geometric.networkexpansion")) {
networkCells.add(temp);
}
}
for (int i = 0; i < networkCells.size(); i++) {
Cell cell = networkCells.get(i);
ListMultimap<String, ParameterValue> params = cell.getTransformationParameters();
List<ParameterValue> values = params.get("bufferWidth");
String temp = values.get(0).as(String.class);
if (i == 0) {
assertEquals("50", temp);
}
if (i == 1) {
assertEquals("5", temp);
}
}
// check if all cells were tested
assertEquals(2, networkCells.size());
}
/** Test for formatted string translation in aligment */
@Test
public void testFormattedString1() {
Collection<? extends Cell> cells = alignment.getCells();
Iterator<? extends Cell> it = cells.iterator();
Cell cell = null;
while (it.hasNext()) {
Cell temp = it.next();
if (temp.getTransformationIdentifier().equals("eu.esdihumboldt.hale.align.formattedstring")) {
cell = temp;
break;
}
}
ListMultimap<String, ParameterValue> params = cell.getTransformationParameters();
List<ParameterValue> values = params.get("pattern");
assertEquals(1, values.size());
// size is 1, so "get(0)" works fine
assertEquals("{id}-xxx-{details.address.street}", values.get(0).getValue());
}
/** Test for classification mapping function in alignment2 */
@Test
public void testClassificationMapping1() {
Collection<? extends Cell> cells = alignment2.getCells();
Iterator<? extends Cell> it = cells.iterator();
Cell cell = null;
while (it.hasNext()) {
Cell temp = it.next();
if (temp.getTransformationIdentifier().equals("eu.esdihumboldt.hale.align.classification")) {
cell = temp;
break;
}
}
ListMultimap<String, ParameterValue> params = cell.getTransformationParameters();
List<ParameterValue> values = params.get("classificationMapping");
for (int i = 0; i < values.size(); i++) {
String temp = values.get(i).as(String.class);
if (i == 0) {
assertEquals("onGroundSurface 3", temp);
}
if (i == 1) {
assertEquals("suspendedOrElevated 2", temp);
}
if (i == 2) {
assertEquals("underground 1", temp);
}
}
// check if all values were tested
assertEquals(3, values.size());
}
/** test for the inspire geographical name function in alignment7 */
@Test
public void testGeographicalName2() {
Collection<? extends Cell> cells = alignment7.getCells();
Iterator<? extends Cell> it = cells.iterator();
Cell cell = null;
while (it.hasNext()) {
Cell temp = it.next();
if (temp.getTransformationIdentifier()
.equals("eu.esdihumboldt.cst.functions.inspire.geographicalname")) {
cell = temp;
break;
}
}
ListMultimap<String, ParameterValue> params = cell.getTransformationParameters();
List<ParameterValue> gender = params.get("grammaticalGender");
List<ParameterValue> number = params.get("grammaticalNumber");
List<ParameterValue> lang = params.get("language");
List<ParameterValue> nameStatus = params.get("nameStatus");
List<ParameterValue> nativeness = params.get("nativeness");
List<ParameterValue> ipa = params.get("pronunciationIPA");
List<ParameterValue> sound = params.get("pronunciationSoundLink");
List<ParameterValue> source = params.get("sourceOfName");
List<ParameterValue> script = params.get("script");
List<ParameterValue> text = params.get("text");
List<ParameterValue> trans = params.get("transliterationScheme");
// test if all parameters (except the parameters for the spellings) were
// set only once
assertEquals(1, gender.size());
assertEquals(1, number.size());
assertEquals(1, lang.size());
assertEquals(1, nameStatus.size());
assertEquals(1, nativeness.size());
assertEquals(1, ipa.size());
// sound shouldn't be available because in older version we couldn't
// enter a value
assertEquals(0, sound.size());
assertEquals(1, source.size());
// spelling parameters
assertEquals(2, script.size());
assertEquals(2, text.size());
assertEquals(2, trans.size());
// now test if they have the correct values
assertEquals("", gender.get(0).getValue());
assertEquals("", number.get(0).getValue());
assertEquals("esp", lang.get(0).getValue());
assertEquals("official", nameStatus.get(0).getValue());
assertEquals("endonym", nativeness.get(0).getValue());
assertEquals("", ipa.get(0).getValue());
assertEquals("unknown", source.get(0).getValue());
for (int i = 0; i < text.size(); i++) {
String spellText = text.get(i).as(String.class);
String spellScript = script.get(i).as(String.class);
String spellTrans = trans.get(i).as(String.class);
if (i == 0) {
assertEquals("identifier", spellText);
assertEquals("idScript", spellScript);
// no value set, initial value is "null"
assertEquals(null, spellTrans);
}
if (i == 1) {
assertEquals("name", spellText);
// initial value is "eng", that was removed so we expect an
// empty string
assertEquals("", spellScript);
assertEquals("nameTrans", spellTrans);
}
}
// check if all parameters were tested (size is 13 because "sound" is
// not defined in params and there are 2 spellings this time and 1
// spelling has 3 parameters -> +3 parameters)
assertEquals(13, params.size());
}
/** test for the inspire geographical name function in alignment6 */
@Test
public void testGeographicalName1() {
Collection<? extends Cell> cells = alignment6.getCells();
Iterator<? extends Cell> it = cells.iterator();
Cell cell = null;
while (it.hasNext()) {
Cell temp = it.next();
if (temp.getTransformationIdentifier()
.equals("eu.esdihumboldt.cst.functions.inspire.geographicalname")) {
cell = temp;
break;
}
}
ListMultimap<String, ParameterValue> params = cell.getTransformationParameters();
List<ParameterValue> gender = params.get("grammaticalGender");
List<ParameterValue> number = params.get("grammaticalNumber");
List<ParameterValue> lang = params.get("language");
List<ParameterValue> nameStatus = params.get("nameStatus");
List<ParameterValue> nativeness = params.get("nativeness");
List<ParameterValue> ipa = params.get("pronunciationIPA");
List<ParameterValue> sound = params.get("pronunciationSoundLink");
List<ParameterValue> source = params.get("sourceOfName");
List<ParameterValue> script = params.get("script");
List<ParameterValue> text = params.get("text");
List<ParameterValue> trans = params.get("transliterationScheme");
// test if all parameters were set only once
assertEquals(1, gender.size());
assertEquals(1, number.size());
assertEquals(1, lang.size());
assertEquals(1, nameStatus.size());
assertEquals(1, nativeness.size());
assertEquals(1, ipa.size());
// sound shouldn't be available because in older version we couldn't
// enter a value
assertEquals(0, sound.size());
assertEquals(1, source.size());
assertEquals(1, script.size());
assertEquals(1, text.size());
assertEquals(1, trans.size());
// now test if they have the correct values
assertEquals("common", gender.get(0).getValue());
assertEquals("dual", number.get(0).getValue());
assertEquals("deu", lang.get(0).getValue());
assertEquals("historical", nameStatus.get(0).getValue());
assertEquals("exonym", nativeness.get(0).getValue());
assertEquals("IDipa", ipa.get(0).getValue());
assertEquals("source", source.get(0).getValue());
assertEquals("IDscript", script.get(0).getValue());
assertEquals("identifier", text.get(0).getValue());
assertEquals("IDtrans", trans.get(0).getValue());
// check if all parameters were tested (size is 10 because "sound" is
// not defined in params)
assertEquals(10, params.size());
}
/** Test for classification mapping function in alignment4 */
@Test
public void testClassificationMapping2() {
Collection<? extends Cell> cells = alignment4.getCells();
Iterator<? extends Cell> it = cells.iterator();
List<Cell> classMapCells = new ArrayList<Cell>();
while (it.hasNext()) {
Cell temp = it.next();
if (temp.getTransformationIdentifier().equals("eu.esdihumboldt.hale.align.classification")) {
classMapCells.add(temp);
}
}
// test all cells that have a classification mapping function
for (int i = 0; i < classMapCells.size(); i++) {
Cell cell = classMapCells.get(i);
ListMultimap<String, ParameterValue> params = cell.getTransformationParameters();
List<ParameterValue> values = params.get("classificationMapping");
// each cell can have more than one value, so iterate through them
// for each cell too
for (int j = 0; j < values.size(); j++) {
String temp = values.get(j).as(String.class);
// "i" is the index for the cell number
// "j" stands for the indices of the values per cell
// test cell #1
if (i == 0 && j == 0) {
assertEquals("underConstruction 5", temp);
}
// test cell #2
if (i == 1 && j == 0) {
assertEquals("manMade 4", temp);
}
if (i == 1 && j == 1) {
assertEquals("natural 5", temp);
}
// test cell #3
if (i == 2 && j == 0) {
assertEquals("intermittent 6", temp);
}
if (i == 2 && j == 1) {
assertEquals("perennial 8", temp);
}
// test cell #4
if (i == 3 && j == 0) {
assertEquals("false 1", temp);
}
if (i == 3 && j == 1) {
assertEquals("true 2", temp);
}
}
}
// check if all cells with a classification mapping function were tested
assertEquals(4, classMapCells.size());
}
