testsrc/compbio/engine/LoadBalancerTester.java

   1 package compbio.engine;\r
   2 \r
   3 import static org.testng.Assert.assertEquals;\r
   4 import static org.testng.Assert.assertNotNull;\r
   5 import static org.testng.Assert.assertTrue;\r
   6 import static org.testng.Assert.fail;\r
   7 \r
   8 import java.io.FileInputStream;\r
   9 import java.io.IOException;\r
  10 import java.util.List;\r
  11 \r
  12 import org.testng.annotations.Test;\r
  13 \r
  14 import compbio.data.sequence.FastaSequence;\r
  15 import compbio.data.sequence.SequenceUtil;\r
  16 import compbio.engine.client.ConfiguredExecutable;\r
  17 import compbio.engine.client.Executable.ExecProvider;\r
  18 import compbio.metadata.AllTestSuit;\r
  19 import compbio.metadata.JobSubmissionException;\r
  20 import compbio.metadata.Limit;\r
  21 import compbio.metadata.PresetManager;\r
  22 import compbio.runner.msa.ClustalW;\r
  23 \r
  24 public class LoadBalancerTester {\r
  25 \r
  26         @Test\r
  27         public void testLoadBalance() {\r
  28                 /**\r
  29                  * This is 5 sequence x per 20000 length\r
  30                  */\r
  31                 String test_input = AllTestSuit.TEST_DATA_PATH_ABSOLUTE\r
  32                                 + "testlimit.fasta";\r
  33                 try {\r
  34                         FileInputStream fio = new FileInputStream(test_input);\r
  35                         List<FastaSequence> data = SequenceUtil.readFasta(fio);\r
  36                         fio.close();\r
  37                         assertNotNull(data);\r
  38                         assertTrue(data.size() > 0);\r
  39 \r
  40                         ClustalW clustal = new ClustalW();\r
  41                         /**\r
  42                          * ClustalW local limit is 40 sequences per 500 letters\r
  43                          */\r
  44                         ConfiguredExecutable<ClustalW> confClust = Configurator\r
  45                                         .configureExecutable(clustal);\r
  46                         ExecProvider aEngine = LoadBalancer.getEngine(confClust, data);\r
  47                         Limit locExec = confClust\r
  48                                         .getLimit(PresetManager.LOCAL_ENGINE_LIMIT_PRESET);\r
  49                         assertTrue(locExec.getSeqNumber() <= data.size()\r
  50                                         || locExec.getAvgSeqLength() * locExec.getSeqNumber() <= Limit\r
  51                                                         .getAvgSequenceLength(data));\r
  52 \r
  53                         assertEquals(aEngine, ExecProvider.Cluster);\r
  54 \r
  55                 } catch (JobSubmissionException e) {\r
  56                         e.printStackTrace();\r
  57                         fail(e.getMessage());\r
  58                 } catch (IOException e) {\r
  59                         e.printStackTrace();\r
  60                         fail(e.getMessage());\r
  61                 }\r
  62 \r
  63         }\r
  64 }\r