public void testExtractExperimentDesignFromProteomicsExperiment(String experimentAccession)
throws IOException {
BaselineExperiment baselineExperiment =
(BaselineExperiment) experimentTrader.getPublicExperiment(experimentAccession);
assertTrue(baselineExperiment.getType().isProteomicsBaseline());
subject = new BaselineExperimentAssayGroupsLines(baselineExperiment);
assertAbout(subject, experimentAccession);
}
@Before
public void setUp() throws Exception {
subject = new BaselineRequestContextBuilder();
when(preferencesMock.getSerializedFilterFactors()).thenReturn(SERIALIZED_FACTORS);
when(preferencesMock.getQueryFactorValues())
.thenReturn(Sets.newTreeSet(Sets.newHashSet(QUERY_FACTOR1, QUERY_FACTOR2, QUERY_FACTOR3)));
when(preferencesMock.getQueryFactorType()).thenReturn(FACTOR_TYPE);
when(preferencesMock.getGeneQuery()).thenReturn(SemanticQuery.create());
when(experimentMock.getExperimentalFactors()).thenReturn(experimentalFactorsMock);
when(experimentMock.getSpecies())
.thenReturn(
new Species(
"H**o sapiens",
SpeciesProperties.create(
"h**o sapiens",
"Homo_sapiens",
"ORGANISM_PART",
"animals",
ImmutableSortedMap.<String, List<String>>of())));
when(experimentalFactorsMock.getComplementFactors(anySetOf(Factor.class)))
.thenReturn(Sets.newTreeSet(Sets.newHashSet(new Factor(FACTOR_TYPE, FACTOR_VALUE))));
}
