private BaselineProfile buildProfileWithUnknownExpression() {
BaselineExpression unknownExpression1 =
new BaselineExpression("NT", new FactorSet().add(factor1));
BaselineProfile profileWithUnknownExpression = new BaselineProfile("OTHER_ID", "OTHER_NAME");
profileWithUnknownExpression.add(QUERY_FACTOR_TYPE, unknownExpression1);
return profileWithUnknownExpression;
}
@Before
public void setUp() throws Exception {
subject = new BaselineProfile(GENE_ID, GENE_NAME);
subject
.add(QUERY_FACTOR_TYPE, expression_1)
.add(QUERY_FACTOR_TYPE, expression_2)
.add(QUERY_FACTOR_TYPE, expression_3);
}
@Test
public void nonTissueExpressionsDoNotAffectMinOrMax() {
assertThat(subject.getMinExpressionLevel(), is(2.2));
assertThat(subject.getMaxExpressionLevel(), is(3.001));
subject.add(QUERY_FACTOR_TYPE, new BaselineExpression("NT", new FactorSet().add(factor1)));
assertThat(subject.getMinExpressionLevel(), is(2.2));
assertThat(subject.getMaxExpressionLevel(), is(3.001));
}
BaselineProfile buildOtherProfile() {
BaselineExpression expression_1 = new BaselineExpression(1D, new FactorSet().add(factor1));
BaselineExpression expression_2 = new BaselineExpression(2D, new FactorSet().add(factor2));
BaselineExpression expression_3 = new BaselineExpression(3D, new FactorSet().add(factor3));
BaselineExpression expression_4 = new BaselineExpression(300D, new FactorSet().add(factor4));
BaselineProfile baselineProfile = new BaselineProfile("OTHER_ID", "OTHER_NAME");
return baselineProfile
.add(QUERY_FACTOR_TYPE, expression_1)
.add(QUERY_FACTOR_TYPE, expression_2)
.add(QUERY_FACTOR_TYPE, expression_3)
.add(QUERY_FACTOR_TYPE, expression_4);
}