import java.io.IOException;\r
import java.text.ParseException;\r
import java.util.Arrays;\r
+import java.util.HashSet;\r
\r
import javax.xml.bind.ValidationException;\r
\r
import org.testng.annotations.BeforeMethod;\r
import org.testng.annotations.Test;\r
\r
-import compbio.conservation.Method;\r
-import compbio.data.sequence.MultiAnnotatedSequence;\r
+import compbio.data.sequence.Score;\r
+import compbio.data.sequence.ScoreManager;\r
import compbio.engine.AsyncExecutor;\r
import compbio.engine.Configurator;\r
import compbio.engine.FilePuller;\r
lr.executeJob();\r
ConfiguredExecutable<?> al1 = lr.waitForResult();\r
assertNotNull(al1.getResults());\r
- MultiAnnotatedSequence<Method> annotations = confAAcon.getResults();\r
+ ScoreManager annotations = confAAcon.getResults();\r
assertNotNull(annotations);\r
- assertEquals(annotations.getAnnotations().size(), 1);\r
+ assertEquals(annotations.asSet().size(), 18);\r
assertEquals(al1.getResults(), annotations);\r
} catch (JobSubmissionException e) {\r
e.printStackTrace();\r
lr.executeJob();\r
ConfiguredExecutable<?> al1 = lr.waitForResult();\r
assertNotNull(al1.getResults());\r
- MultiAnnotatedSequence<Method> annotations = confAAcon.getResults();\r
+ ScoreManager annotations = confAAcon.getResults();\r
assertNotNull(annotations);\r
- assertEquals(annotations.getAnnotations().size(), 13);\r
+ assertEquals(annotations.asSet().size(), 13);\r
assertEquals(al1.getResults(), annotations);\r
} catch (JobSubmissionException e) {\r
e.printStackTrace();\r
lr.executeJob();\r
ConfiguredExecutable<?> al1 = lr.waitForResult();\r
assertNotNull(al1.getResults());\r
- MultiAnnotatedSequence<Method> annotations = confAAcon.getResults();\r
+ ScoreManager annotations = confAAcon.getResults();\r
assertNotNull(annotations);\r
- assertEquals(annotations.getAnnotations().size(), 3);\r
+ assertEquals(annotations.asSet().size(), 3);\r
assertEquals(al1.getResults(), annotations);\r
+\r
} catch (JobSubmissionException e) {\r
e.printStackTrace();\r
fail(e.getLocalizedMessage());\r