public Image testScatterPlot() {
Connection c = null;
try {
initDatasource();
c = datasource.getConnection();
SourceDataset q = new SourceDataset();
q.setId(78);
PropertiesChartGenerator gen = new PropertiesChartGenerator();
gen.setConnection(c);
Property p = Property.getInstance("XLogP", "");
p.setId(13993);
gen.setPropertyX(p);
p = Property.getInstance("LLNA EC3 %", "");
p.setId(13995);
gen.setPropertyY(p);
return gen.process(q);
} catch (Exception x) {
x.printStackTrace();
return null;
} finally {
try {
c.close();
} catch (Exception x) {
}
}
}
@Test
public Image testPropertyHistogramPlot() {
Connection c = null;
try {
initDatasource();
c = datasource.getConnection();
IStoredQuery q = new StoredQuery(13); // this is dataset now
q.setName("IRISTR: EPA Integrated Risk Information System (IRIS) Toxicity Review Data");
XTabChartGenerator gen = new XTabChartGenerator();
gen.setBinWidth(0.001);
gen.setConnection(c);
gen.setPropertyX(Property.getInstance("Inhalation_UnitRisk_micromol_per_m3", ""));
// gen.setPropertyY(Property.getInstance("Cramer Class", ""));
gen.setPropertyY(Property.getInstance("Oral_RfD_Confidence", ""));
return gen.process(q);
} catch (Exception x) {
x.printStackTrace();
return null;
} finally {
try {
c.close();
} catch (Exception x) {
}
}
}
public Image test() {
Connection c = null;
try {
initDatasource();
c = datasource.getConnection();
// IStoredQuery q = new StoredQuery(6);
SourceDataset dataset = new SourceDataset();
dataset.setId(6);
PieChartGenerator gen = new PieChartGenerator();
gen.setConnection(c);
Property p = Property.getInstance("toxTree.tree.cramer.CramerRules", "");
p.setId(12361);
gen.setProperty(p);
return gen.process(dataset);
} catch (Exception x) {
x.printStackTrace();
return null;
} finally {
try {
c.close();
} catch (Exception x) {
}
}
}
@Override
protected List<Property> createProperties(Algorithm algorithm) throws Exception {
List<Property> p = new ArrayList<Property>();
LiteratureEntry le = LiteratureEntry.getInstance(Reference.encode(getName(algorithm)), "value");
Property property = new Property("value", le);
property.setLabel(algorithm.getName());
property.setClazz(String.class);
p.add(property);
return p;
}
@Override
protected void verifyRows(AmbitRows<IStructureRecord> rows) throws Exception {
// IDatabaseConnection c = getConnection();
Assert.assertNotNull(rows);
// Assert.assertEquals(4,rows.size());
while (rows.next()) {
IStructureRecord r = rows.getObject();
logger.fine(r.toString());
for (Property p : r.getProperties()) {
logger.fine(p.toString());
logger.fine(r.getProperty(p).toString());
}
}
}
@Override
protected void setGroupProperties(Context context, Request request, Response response)
throws ResourceException {
String[] r = NCISearchProcessor.METHODS.reach.getOpenToxEntry();
if (r == null) return;
Template gp = new Template();
for (int i = 0; i < r.length; i++) {
Property p = new Property(r[i]);
p.setLabel(r[i]);
p.setEnabled(true);
p.setOrder(i + 1);
gp.add(p);
}
setGroupProperties(gp);
}
@Override
protected IQueryRetrieval<Object> createQuery() {
RetrieveField q = new RetrieveField();
q.setValue(new StructureRecord(-1, 100215, null, null));
q.setFieldname(Property.getInstance("Property 1", ""));
return q;
}
@Override
protected IQueryRetrieval<IStructureRecord> createQuery() {
Profile<Property> profile = new Profile<Property>();
for (int i = 1; i < 5; i++) {
// for the test only id matters
Property p = Property.getInstance(String.format("test%d", i), String.format("test%d", i));
p.setId(i);
p.setEnabled(true);
profile.add(p);
}
RetrieveProfileValuesAsRow q = new RetrieveProfileValuesAsRow();
q.setChemicalsOnly(false);
q.setFieldname(profile);
q.setValue(new int[] {100211, 100214, 100215, 129345});
return q;
}
public Image testMetricNominalPlot() {
Connection c = null;
try {
initDatasource();
c = datasource.getConnection();
IStoredQuery q = new StoredQuery(2);
Nominal2SimilarityChartGenerator gen = new Nominal2SimilarityChartGenerator();
gen.setConnection(c);
gen.setProperty(Property.getInstance("Inventories", ""));
return gen.process(q);
} catch (Exception x) {
x.printStackTrace();
return null;
} finally {
try {
c.close();
} catch (Exception x) {
}
}
}
public void addProperties(Map newProperties) {
Iterator e = newProperties.keySet().iterator();
while (e.hasNext()) {
properties.add(Property.getInstance(e.next().toString(), "I/O"));
}
}