Delete JABAWS testing codes

[proteocache.git] / testsrc / compbio / data / sequence / ClustalAlignmentUtilTester.java

diff --git a/testsrc/compbio/data/sequence/ClustalAlignmentUtilTester.java b/testsrc/compbio/data/sequence/ClustalAlignmentUtilTester.java
deleted file mode 100644 (file)
index 812cd6f..0000000
--- a/testsrc/compbio/data/sequence/ClustalAlignmentUtilTester.java
+++ /dev/null
@@ -1,102 +0,0 @@
-/* Copyright (c) 2009 Peter Troshin\r
- *  \r
- *  JAva Bioinformatics Analysis Web Services (JABAWS) @version: 1.0     \r
- * \r
- *  This library is free software; you can redistribute it and/or modify it under the terms of the\r
- *  Apache License version 2 as published by the Apache Software Foundation\r
- * \r
- *  This library is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without\r
- *  even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the Apache \r
- *  License for more details.\r
- * \r
- *  A copy of the license is in apache_license.txt. It is also available here:\r
- * @see: http://www.apache.org/licenses/LICENSE-2.0.txt\r
- * \r
- * Any republication or derived work distributed in source code form\r
- * must include this copyright and license notice.\r
- */\r
-\r
-package compbio.data.sequence;\r
-\r
-import static org.testng.AssertJUnit.assertEquals;\r
-import static org.testng.AssertJUnit.assertNotNull;\r
-import static org.testng.AssertJUnit.assertTrue;\r
-import static org.testng.AssertJUnit.fail;\r
-\r
-import java.io.FileInputStream;\r
-import java.io.FileNotFoundException;\r
-import java.io.FileWriter;\r
-import java.io.IOException;\r
-import java.io.Writer;\r
-\r
-import org.testng.annotations.Test;\r
-\r
-import compbio.metadata.AllTestSuit;\r
-\r
-public class ClustalAlignmentUtilTester {\r
-\r
-       @Test()\r
-       public void testReadClustalFile() {\r
-               try {\r
-                       readWriteClustal("TO1381.aln");\r
-               } catch (FileNotFoundException e) {\r
-                       e.printStackTrace();\r
-                       fail(e.getMessage());\r
-               } catch (Exception e) {\r
-                       e.printStackTrace();\r
-                       fail(e.getMessage());\r
-               }\r
-       }\r
-\r
-       static void readWriteClustal(String fname) throws IOException,\r
-                       UnknownFileFormatException {\r
-               FileInputStream fio = new FileInputStream(AllTestSuit.TEST_DATA_PATH\r
-                               + fname);\r
-               Alignment seqAl = ClustalAlignmentUtil.readClustalFile(fio);\r
-               assertTrue(seqAl != null);\r
-               assertTrue(seqAl.getSize() == 3);\r
-               assertNotNull(seqAl.getSequences());\r
-               assertEquals(3, seqAl.getSequences().size());\r
-\r
-               // Now try to write the alignment read\r
-               Writer os = new FileWriter(AllTestSuit.TEST_DATA_PATH + fname\r
-                               + ".written");\r
-               ClustalAlignmentUtil.writeClustalAlignment(os, seqAl);\r
-               fio.close();\r
-               os.close();\r
-\r
-               fio = new FileInputStream(AllTestSuit.TEST_DATA_PATH + fname\r
-                               + ".written");\r
-               Alignment readseqs = ClustalAlignmentUtil.readClustalFile(fio);\r
-               assertTrue(readseqs != null);\r
-               assertTrue(readseqs.getSize() == 3);\r
-               fio.close();\r
-       }\r
-\r
-       @Test()\r
-       public void testReadClustalFileShortNames() {\r
-               try {\r
-                       readWriteClustal("TO1381s.aln");\r
-               } catch (FileNotFoundException e) {\r
-                       e.printStackTrace();\r
-                       fail(e.getMessage());\r
-               } catch (Exception e) {\r
-                       e.printStackTrace();\r
-                       fail(e.getMessage());\r
-               }\r
-       }\r
-\r
-       @Test()\r
-       public void testReadClustalFileLongNames() {\r
-               try {\r
-                       readWriteClustal("TO1381L.aln");\r
-               } catch (FileNotFoundException e) {\r
-                       e.printStackTrace();\r
-                       fail(e.getMessage());\r
-               } catch (Exception e) {\r
-                       e.printStackTrace();\r
-                       fail(e.getMessage());\r
-               }\r
-       }\r
-\r
-}\r