From: jprocter <jprocter@compbio.dundee.ac.uk>
Date: Thu, 31 May 2012 17:27:02 +0000 (+0100)
Subject: test for JWS-35 - check that range and first value of prediction for each method... 
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=525f0045b3acc1dedbf16bd3c47e277c6f223c49;p=jabaws.git

test for JWS-35 - check that range and first value of prediction for each method matches expected values
---

diff --git a/testsrc/compbio/data/sequence/SequenceUtilTester.java b/testsrc/compbio/data/sequence/SequenceUtilTester.java
index 2b2ca1a..e646c1e 100644
--- a/testsrc/compbio/data/sequence/SequenceUtilTester.java
+++ b/testsrc/compbio/data/sequence/SequenceUtilTester.java
@@ -35,6 +35,7 @@ import java.util.Set;
 import org.testng.annotations.Test;
 
 import compbio.metadata.AllTestSuit;
+import compbio.runner.disorder.Disembl;
 
 public class SequenceUtilTester {
 
@@ -188,6 +189,35 @@ public class SequenceUtilTester {
 	@Test
 	public void testReadDisemblResults() {
 
+
+		Map<String, Map<String,Set<Range>>> _ranges=new HashMap<String, Map<String,Set<Range>>>();
+		Map<String, Set<Range>> ranges=new HashMap<String,Set<Range>>();
+		Map<String,Map<String, Float>>  _values=new HashMap<String, Map<String,Float>>();
+		Map<String, Float> values = new HashMap<String, Float>();
+		Set<Range> rset;
+		rset = new HashSet<Range>();
+		for (String[] se:new String[][] { { "34","41"},{"50","58"},{"83","91"},{"118","127"},{" 160","169"},{" 191","220"},{" 243","252"},{" 287","343"},{" 350","391"},{" 429","485"},{" 497","506"},{"539","547"}})
+		{
+			rset.add(new Range(se));
+		}
+		ranges.put(DisemblResult.COILS.toString(), rset);
+		values.put(DisemblResult.COILS.toString(), Float.valueOf(0.86010f));
+		rset = new HashSet<Range>();
+		for (String[] se:new String[][] { { "355","368"}})
+		{
+			rset.add(new Range(se));
+		}
+		ranges.put(DisemblResult.REM465.toString(), rset);
+		values.put(DisemblResult.REM465.toString(), Float.valueOf(0.88512f));
+		rset = new HashSet<Range>();
+		for (String[] se:new String[][] { { "190","204"}})
+		{
+			rset.add(new Range(se));
+		}
+		ranges.put(DisemblResult.HOTLOOPS.toString(), rset);
+		values.put(DisemblResult.HOTLOOPS.toString(), Float.valueOf(0.37094f));
+		_ranges.put("Foobar_dundeefriends", ranges);
+		_values.put("Foobar_dundeefriends", values);
 		FileInputStream fio;
 		try {
 			fio = new FileInputStream(AllTestSuit.TEST_DATA_PATH
@@ -202,6 +232,13 @@ public class SequenceUtilTester {
 						.contains(fs));
 				Set<Score> scores = aseqs.get(fs);
 				assertEquals(scores.size(), 3);
+				for (Score sc:scores) {
+					if (_ranges.containsKey(fs))
+					{
+					assertEquals("Checking range for Method "+sc.getMethod(),_ranges.get(fs).get(sc.getMethod()), sc.getRanges());
+					assertEquals("Checking first value for Method "+sc.getMethod(), _values.get(fs).get(sc.getMethod()), sc.getScores().get(0));
+					}
+				}
 			}
 			fio.close();
 		} catch (FileNotFoundException e) {
@@ -215,7 +252,6 @@ public class SequenceUtilTester {
 			fail(e.getLocalizedMessage());
 		}
 	}
-
 	/**
 	 * This test tests the loading of horizontally formatted Jronn output file
 	 * 
@@ -302,19 +338,19 @@ public class SequenceUtilTester {
 			assertEquals(0, score.getRanges().size());
 			assertEquals(568, score.getScores().size());
 			assertEquals("Long", score.getMethod());
-			
+
 			score = scores.get("Foobar");
 			assertNotNull(score);
 			assertEquals(0, score.getRanges().size());
 			assertEquals(481, score.getScores().size());
 			assertEquals("Long", score.getMethod());
-			
+
 			score = scores.get("dundeefriends");
 			assertNotNull(score);
 			assertEquals(0, score.getRanges().size());
 			assertEquals(513, score.getScores().size());
 			assertEquals("Long", score.getMethod());
-			
+
 		} catch (IOException e) {
 			e.printStackTrace();
 			fail(e.getLocalizedMessage());