X-Git-Url: http://source.jalview.org/gitweb/?p=jabaws.git;a=blobdiff_plain;f=runner%2Fcompbio%2Fpipeline%2F_jpred%2FBlastHmmerComparator.java;fp=runner%2Fcompbio%2Fpipeline%2F_jpred%2FBlastHmmerComparator.java;h=0000000000000000000000000000000000000000;hp=28c64d426ec6ee1c53c51d7bfc6dce9e1fcfbfc5;hb=b19d5c38c97cf895fc3379a918b5dcf1f3f2031e;hpb=b7a076f21e11b8cfa99f9e52759dcff702b957fd

diff --git a/runner/compbio/pipeline/_jpred/BlastHmmerComparator.java b/runner/compbio/pipeline/_jpred/BlastHmmerComparator.java
deleted file mode 100644
index 28c64d4..0000000
--- a/runner/compbio/pipeline/_jpred/BlastHmmerComparator.java
+++ /dev/null
@@ -1,60 +0,0 @@
-/* Copyright (c) 2011 Peter Troshin
- *  
- *  JAva Bioinformatics Analysis Web Services (JABAWS) @version: 2.0     
- * 
- *  This library is free software; you can redistribute it and/or modify it under the terms of the
- *  Apache License version 2 as published by the Apache Software Foundation
- * 
- *  This library is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without
- *  even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the Apache 
- *  License for more details.
- * 
- *  A copy of the license is in apache_license.txt. It is also available here:
- * @see: http://www.apache.org/licenses/LICENSE-2.0.txt
- * 
- * Any republication or derived work distributed in source code form
- * must include this copyright and license notice.
- */
-package compbio.pipeline._jpred;
-
-import java.io.IOException;
-import java.util.HashSet;
-import java.util.Set;
-
-import javax.xml.stream.XMLStreamException;
-
-public class BlastHmmerComparator {
-
-    /**
-     * args[0] is assumed to be the name of a Blast output file
-     * 
-     * @throws XMLStreamException
-     * @throws IOException
-     */
-    public static void main(String[] args) throws XMLStreamException,
-	    IOException {
-	BlastParser res1 = new BlastParser(args[0]);
-	JackHmmerHitParser res2 = new JackHmmerHitParser(args[1]);
-	Set<Hit> list = res1.iters.get(3);
-	Set<Hit> otherList = res2.hits;
-	System.out.print("Iter " + 3 + " arg0: " + list.size());
-	System.out.println(" arg1: " + otherList.size());
-	BlastParser.printNames(getDiff(list, otherList));
-	BlastParser.printNames(getDiff(otherList, list));
-	// System.out.println("Diffs: " + getDiff(list, otherList));
-	// System.out.println("Diffs: " + getDiff(otherList, list));
-
-    }
-
-    static Set<Hit> getDiff(Set<Hit> list, Set<Hit> otherList) {
-	Set diff = new HashSet<Hit>();
-	for (Hit pseq : list) {
-	    if (otherList.contains(pseq)) {
-		continue;
-	    }
-	    diff.add(pseq);
-	}
-	return diff;
-    }
-
-}