testsrc/compbio/engine/conf/PropertyHelperManagerTester.java

   1 /* Copyright (c) 2009 Peter Troshin\r
   2  *  \r
   3  *  JAva Bioinformatics Analysis Web Services (JABAWS) @version: 1.0     \r
   4  * \r
   5  *  This library is free software; you can redistribute it and/or modify it under the terms of the\r
   6  *  Apache License version 2 as published by the Apache Software Foundation\r
   7  * \r
   8  *  This library is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without\r
   9  *  even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the Apache \r
  10  *  License for more details.\r
  11  * \r
  12  *  A copy of the license is in apache_license.txt. It is also available here:\r
  13  * @see: http://www.apache.org/licenses/LICENSE-2.0.txt\r
  14  * \r
  15  * Any republication or derived work distributed in source code form\r
  16  * must include this copyright and license notice.\r
  17  */\r
  18 \r
  19 package compbio.engine.conf;\r
  20 \r
  21 import static org.testng.Assert.assertNotNull;\r
  22 import static org.testng.Assert.assertTrue;\r
  23 \r
  24 import java.io.File;\r
  25 \r
  26 import org.testng.annotations.BeforeClass;\r
  27 import org.testng.annotations.Test;\r
  28 \r
  29 import compbio.metadata.AllTestSuit;\r
  30 import compbio.util.PropertyHelper;\r
  31 \r
  32 public class PropertyHelperManagerTester {\r
  33 \r
  34         PropertyHelper ph;\r
  35 \r
  36         @BeforeClass(alwaysRun=true)\r
  37         public void testLoadResources() {\r
  38                 ph = PropertyHelperManager.getPropertyHelper();\r
  39                 assertNotNull(ph);\r
  40         }\r
  41 \r
  42         @Test(groups = AllTestSuit.test_group_cluster)\r
  43         public void testClusterEngineConf() {\r
  44                 // Below are the properties on cluster engine required for its\r
  45                 // functioning\r
  46                 validateDirProp("cluster.tmp.directory");\r
  47         }\r
  48 \r
  49         void validateDirProp(String propName) {\r
  50                 assertNotNull(ph);\r
  51                 assertNotNull(ph.getProperty(propName));\r
  52                 File tmp = new File(ph.getProperty(propName).trim());\r
  53                 assertTrue(tmp.exists());\r
  54                 assertTrue(tmp.isDirectory());\r
  55                 assertTrue(tmp.canRead());\r
  56                 assertTrue(tmp.canWrite());\r
  57         }\r
  58 \r
  59         void validateExecFileProp(String propName) {\r
  60                 validateFileProp(propName);\r
  61                 File tmp = new File(ph.getProperty(propName));\r
  62                 assertTrue(tmp.canExecute());\r
  63         }\r
  64 \r
  65         void validateFileProp(String propName) {\r
  66                 assertNotNull(ph.getProperty(propName));\r
  67                 File tmp = new File(ph.getProperty(propName));\r
  68                 assertTrue(tmp.exists());\r
  69                 assertTrue(tmp.isFile());\r
  70                 assertTrue(tmp.canRead());\r
  71         }\r
  72 \r
  73         @Test\r
  74         public void validateClustalConfiguration() {\r
  75                 // Below are the properties on Clustal executable required for its\r
  76                 // functioning\r
  77                 // Executables could not be verified as full path is constructed only at\r
  78                 // runtime\r
  79                 assertNotNull("local.clustalw.bin.windows");\r
  80                 assertNotNull("local.clustalw.bin");\r
  81                 assertNotNull("cluster.clustalw.bin");\r
  82                 validateFileProp("clustalw.presets.file");\r
  83                 validateFileProp("clustalw.parameters.file");\r
  84                 validateFileProp("clustalw.limits.file");\r
  85         }\r
  86 \r
  87         @Test\r
  88         public void validateMuscleConfiguration() {\r
  89                 assertNotNull("local.muscle.bin.windows");\r
  90                 assertNotNull("local.muscle.bin");\r
  91                 assertNotNull("cluster.muscle.bin");\r
  92                 validateFileProp("muscle.presets.file");\r
  93                 validateFileProp("muscle.parameters.file");\r
  94                 validateFileProp("muscle.limits.file");\r
  95         }\r
  96 \r
  97         @Test\r
  98         public void validateTcoffeeConfiguration() {\r
  99                 assertNotNull("local.tcoffee.bin.windows");\r
 100                 assertNotNull("local.tcoffee.bin");\r
 101                 assertNotNull("cluster.tcoffee.bin");\r
 102                 validateFileProp("tcoffee.presets.file");\r
 103                 validateFileProp("tcoffee.parameters.file");\r
 104                 validateFileProp("tcoffee.limits.file");\r
 105         }\r
 106 \r
 107         @Test\r
 108         public void validateMafftConfiguration() {\r
 109                 assertNotNull("local.mafft.bin.windows");\r
 110                 assertNotNull("local.mafft.bin");\r
 111                 assertNotNull("cluster.mafft.bin");\r
 112                 validateFileProp("mafft.presets.file");\r
 113                 validateFileProp("mafft.parameters.file");\r
 114                 validateFileProp("mafft.limits.file");\r
 115         }\r
 116 }\r