+++ /dev/null
-/* Copyright (c) 2011 Peter Troshin\r
- * \r
- * JAva Bioinformatics Analysis Web Services (JABAWS) @version: 2.0 \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
-package compbio.pipeline._jpred;\r
-\r
-import java.io.IOException;\r
-import java.util.HashSet;\r
-import java.util.Set;\r
-\r
-import javax.xml.stream.XMLStreamException;\r
-\r
-public class BlastHmmerComparator {\r
-\r
- /**\r
- * args[0] is assumed to be the name of a Blast output file\r
- * \r
- * @throws XMLStreamException\r
- * @throws IOException\r
- */\r
- public static void main(String[] args) throws XMLStreamException,\r
- IOException {\r
- BlastParser res1 = new BlastParser(args[0]);\r
- JackHmmerHitParser res2 = new JackHmmerHitParser(args[1]);\r
- Set<Hit> list = res1.iters.get(3);\r
- Set<Hit> otherList = res2.hits;\r
- System.out.print("Iter " + 3 + " arg0: " + list.size());\r
- System.out.println(" arg1: " + otherList.size());\r
- BlastParser.printNames(getDiff(list, otherList));\r
- BlastParser.printNames(getDiff(otherList, list));\r
- // System.out.println("Diffs: " + getDiff(list, otherList));\r
- // System.out.println("Diffs: " + getDiff(otherList, list));\r
-\r
- }\r
-\r
- static Set<Hit> getDiff(Set<Hit> list, Set<Hit> otherList) {\r
- Set diff = new HashSet<Hit>();\r
- for (Hit pseq : list) {\r
- if (otherList.contains(pseq)) {\r
- continue;\r
- }\r
- diff.add(pseq);\r
- }\r
- return diff;\r
- }\r
-\r
-}\r