public void testWriteAssayProperties() throws AtlasLoaderException {
// create investigation
MAGETABInvestigation investigation = new MAGETABInvestigation();
investigation.IDF.experimentalFactorType.add("Type");
investigation.IDF.experimentalFactorName.add("Type");
Assay assay = new Assay("TEST-ASSAY");
AssayNode assayNode = new AssayNode();
FactorValueAttribute fva = new FactorValueAttribute();
fva.type = "Type";
fva.setAttributeValue("specific factor value");
assayNode.factorValues.add(fva);
final LoaderDAO dao = MockFactory.createLoaderDAO();
AssayAndHybridizationStep.writeAssayProperties(investigation, assay, assayNode, dao);
// now get properties of assay - we should have one matching our factor value
assertSame("Wrong number of properties", assay.getProperties().size(), 1);
for (AssayProperty p : assay.getProperties()) {
assertEquals("Wrong property name", p.getName(), "type");
assertEquals("Wrong property value", p.getValue(), "specific factor value");
}
}
public void testWriteSampleProperties() throws AtlasLoaderException {
// create investigation
MAGETABInvestigation investigation = new MAGETABInvestigation();
Sample sample = new Sample("TEST-SAMPLE");
SourceNode sourceNode = new SourceNode();
CharacteristicsAttribute fva = new CharacteristicsAttribute();
fva.type = "Type";
fva.setAttributeValue("specific factor value");
sourceNode.characteristics.add(fva);
new SourceStep().readSampleProperties(sample, sourceNode, MockFactory.createLoaderDAO());
// now get properties of assay - we should have one matching our factor value
assertSame("Wrong number of properties", sample.getProperties().size(), 1);
for (SampleProperty p : sample.getProperties()) {
assertEquals("Wrong property name", p.getName(), "type");
assertEquals("Wrong property value", p.getValue(), "specific factor value");
}
}
