/**
* clear down attributes map before tests
*/
- @BeforeClass
+ @BeforeClass(alwaysRun = true)
public void setUp()
{
FeatureAttributes fa = FeatureAttributes.getInstance();
/**
* clear down attributes map after tests
*/
- @AfterMethod
+ @AfterMethod(alwaysRun = true)
public void tearDown()
{
FeatureAttributes fa = FeatureAttributes.getInstance();
* Test the method that keeps attribute names in non-case-sensitive order,
* including handling of 'compound' names
*/
- @Test(groups="Functional")
+ @Test(groups = "Functional")
public void testAttributeNameComparator()
{
FeatureAttributes fa = FeatureAttributes.getInstance();
"comparator");
assertEquals(
- comp.compare(new String[] { "CSQ" }, new String[] { "csq" }), 0);
+ comp.compare(new String[]
+ { "CSQ" }, new String[] { "csq" }), 0);
- assertTrue(comp.compare(new String[] { "CSQ", "a" },
- new String[] { "csq" }) > 0);
+ assertTrue(
+ comp.compare(new String[]
+ { "CSQ", "a" }, new String[] { "csq" }) > 0);
- assertTrue(comp.compare(new String[] { "CSQ" }, new String[] { "csq",
- "b" }) < 0);
+ assertTrue(
+ comp.compare(new String[]
+ { "CSQ" }, new String[] { "csq", "b" }) < 0);
- assertTrue(comp.compare(new String[] { "CSQ", "AF" }, new String[] {
- "csq", "ac" }) > 0);
+ assertTrue(
+ comp.compare(new String[]
+ { "CSQ", "AF" }, new String[] { "csq", "ac" }) > 0);
- assertTrue(comp.compare(new String[] { "CSQ", "ac" }, new String[] {
- "csq", "AF" }) < 0);
+ assertTrue(
+ comp.compare(new String[]
+ { "CSQ", "ac" }, new String[] { "csq", "AF" }) < 0);
}
@Test(groups = "Functional")
assertNull(fa.getMinMax("Pfam", "kd"));
sf.setValue("domain", "xyz");
assertNull(fa.getMinMax("Pfam", "kd"));
- sf.setValue("kd", "some text");
- assertNull(fa.getMinMax("Pfam", "kd"));
sf.setValue("kd", "1.3");
assertEquals(fa.getMinMax("Pfam", "kd"), new float[] { 1.3f, 1.3f });
sf.setValue("kd", "-2.6");
assertEquals(fa.getMinMax("Pfam", "kd"), new float[] { -2.6f, 1.3f });
+ // setting 'mixed' character and numeric values wipes the min/max value
+ sf.setValue("kd", "some text");
+ assertNull(fa.getMinMax("Pfam", "kd"));
+
Map<String, String> csq = new HashMap<>();
csq.put("AF", "-3");
sf.setValue("CSQ", csq);
"group");
sf.setValue("kd", "-1");
sf.setValue("domain", "Metal");
+ sf.setValue("foo", " ");
sf.setValue("phase", "1");
- sf.setValue("phase", "reverse");
+ sf.setValue("phase", "1reverse");
assertEquals(fa.getDatatype("Pfam", "kd"), Datatype.Number);
assertEquals(fa.getDatatype("Pfam", "domain"), Datatype.Character);
assertEquals(fa.getDatatype("Pfam", "phase"), Datatype.Mixed);
+ assertNull(fa.getDatatype("Pfam", "unobserved"));
+ assertNull(fa.getDatatype("Pfam", "foo"));// empty values are ignored
}
}