X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fio%2FBioJsHTMLOutputTest.java;h=5c776f6e66e0db8a8db701def5b317cbef940372;hb=c19d2a91ca05e052e3408bf5852d88eb5d0608f1;hp=694419f65ca0259da3bc1c2fcd9ab72166b6eae8;hpb=7c9ed2475bfb426d786ba6e80d1965ebb74d518e;p=jalview.git

diff --git a/test/jalview/io/BioJsHTMLOutputTest.java b/test/jalview/io/BioJsHTMLOutputTest.java
index 694419f..5c776f6 100644
--- a/test/jalview/io/BioJsHTMLOutputTest.java
+++ b/test/jalview/io/BioJsHTMLOutputTest.java
@@ -1,96 +1,151 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9.0b2)
+ * Copyright (C) 2015 The Jalview Authors
+ * 
+ * This file is part of Jalview.
+ * 
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License 
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *  
+ * Jalview 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 GNU General Public License for more details.
+ * 
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
 package jalview.io;
 
-import jalview.datamodel.Alignment;
-import jalview.datamodel.Sequence;
+import jalview.json.binding.biojs.BioJSReleasePojo;
+import jalview.json.binding.biojs.BioJSRepositoryPojo;
 
+import java.io.File;
 import java.io.IOException;
-import java.util.Iterator;
+import java.net.MalformedURLException;
+import java.net.URISyntaxException;
+import java.net.URL;
+import java.net.URLConnection;
+import java.util.TreeMap;
 
-import org.json.simple.JSONArray;
-import org.json.simple.JSONObject;
-import org.json.simple.parser.JSONParser;
-import org.json.simple.parser.ParseException;
-import org.junit.Assert;
-import org.junit.Test;
-
-import com.json.JSONException;
+import org.testng.Assert;
+import org.testng.AssertJUnit;
+import org.testng.annotations.Test;
 
 public class BioJsHTMLOutputTest
 {
 
-
-  @Test
+  @Test(groups = { "Functional" })
   public void getJalviewAlignmentAsJsonString()
   {
-    BioJsHTMLOutput bioJsHtmlOuput = new BioJsHTMLOutput(null, null);
-    bioJsHtmlOuput.setGlobalColorScheme("Zappo");
-
-    Sequence[] seqs = new Sequence[1];
-    Sequence seq = new Sequence("name", "ABCDEFGHIJKLMNOPQRSTUVWXYZ", 1, 26);
-    // SequenceFeature seqFeature = new SequenceFeature("type", "desc",
-    // "status", 1, 5, "jalview");
-    // seq.addSequenceFeature(seqFeature);
-    seq.setDatasetSequence(seq);
-    seqs[0] = seq;
-
-    Alignment al = new Alignment(seqs);
+    String bjsTemplate = null;
     try
     {
+      BioJsHTMLOutput.updateBioJS();
+      try
+      {
+        // allow the update some three seconds to complete before getting latest
+        // version of BioJS template
+        Thread.sleep(1000 * 3);
+      } catch (InterruptedException e)
+      {
+        e.printStackTrace();
+      }
+      bjsTemplate = BioJsHTMLOutput.getBioJsTemplateAsString();
+      // System.out.println(bjsTemplate);
+    } catch (IOException e)
+    {
+      e.printStackTrace();
+    }
+    Assert.assertNotNull(bjsTemplate);
+  }
 
-      JSONParser jsonParser = new JSONParser();
-      String actualJsonString = bioJsHtmlOuput
-              .getJalviewAlignmentAsJsonString(al);
-
-      JSONObject actualJsonObj = (JSONObject) jsonParser.parse(actualJsonString);
-
-      System.out.println("Output : " + actualJsonString);
-      Assert.assertTrue(actualJsonObj.get("globalColorScheme") != null); 
-      Assert.assertTrue((actualJsonObj.get("globalColorScheme").toString()).equals("zappo")); 
-      
-      Assert.assertTrue(actualJsonObj.get("webStartUrl") != null);
-      Assert.assertTrue((actualJsonObj.get("webStartUrl").toString())
-              .equals("http://www.jalview.org/services/launchApp"));
-
-      JSONArray actualSeqJsonObj = (JSONArray) actualJsonObj.get("seqs");
-      Assert.assertTrue(actualSeqJsonObj != null);
-      Assert.assertTrue(actualSeqJsonObj.size() == 1);
-
-      @SuppressWarnings("unchecked")
-      Iterator<JSONObject> jsonIter = actualSeqJsonObj.iterator();
-      JSONObject jsonSeq = jsonIter.next();
-      Assert.assertTrue(jsonSeq != null);
-
-      Assert.assertTrue(jsonSeq.get("name") != null);
-      Assert.assertTrue((jsonSeq.get("name").toString())
-              .equals("name/1-26"));
-
-      Assert.assertTrue(jsonSeq.get("seq") != null);
-      Assert.assertTrue((jsonSeq.get("seq").toString())
-              .equals("ABCDEFGHIJKLMNOPQRSTUVWXYZ"));
-
-      Assert.assertTrue(jsonSeq.get("id") != null);
-      Assert.assertTrue((jsonSeq.get("id").toString()).equals("1"));
+  @Test(
+    groups = { "Functional" },
+    expectedExceptions = NullPointerException.class)
+  public void expectedNullPointerException()
+  {
+    try
+    {
+      BioJsHTMLOutput.refreshBioJSVersionsInfo(null);
+    } catch (URISyntaxException e)
+    {
+      AssertJUnit.fail("Expception occured while testing!");
+      e.printStackTrace();
+    }
+  }
 
-      Assert.assertTrue(jsonSeq.get("start") != null);
-      Assert.assertTrue((jsonSeq.get("start").toString()).equals("1"));
+  @Test(groups = { "Functional" })
+  public void getBioJsMSAVersions()
+  {
+    TreeMap<String, File> versions = null;
+    try
+    {
+      BioJsHTMLOutput
+              .refreshBioJSVersionsInfo(BioJsHTMLOutput.BJS_TEMPLATES_LOCAL_DIRECTORY);
+      versions = BioJsHTMLOutput.getBioJsMSAVersions();
+    } catch (URISyntaxException e)
+    {
+      AssertJUnit.fail("Expception occured while testing!");
+      e.printStackTrace();
+    }
+    AssertJUnit.assertNotNull("No versions found", versions);
+    AssertJUnit.assertTrue("One or more Templates required",
+            versions.size() > 0);
+    System.out
+            .println("Number of discovered versions : " + versions.size());
+    for (String v : versions.keySet())
+    {
+      System.out.println("version : " + v);
+      System.out.println("File : " + versions.get(v));
+    }
 
-      Assert.assertTrue(jsonSeq.get("end") != null);
-      Assert.assertTrue((jsonSeq.get("end").toString()).equals("26"));
+    System.out.println("\nCurrent latest version : "
+            + BioJsHTMLOutput.getCurrentBJSTemplateFile());
+    AssertJUnit.assertNotNull("Latest BioJsMSA version NOT found!",
+            BioJsHTMLOutput.getCurrentBJSTemplateFile());
 
-      Assert.assertTrue(jsonSeq.get("features") != null);
-      Assert.assertTrue(jsonSeq.get("features").toString().equals("[]"));
+  }
 
+  @Test(groups = { "Network" })
+  public void testBioJsUpdate()
+  {
+    String url = BioJsHTMLOutput.BJS_TEMPLATE_GIT_REPO;
+    AssertJUnit
+            .assertTrue("URL not reacable : " + url, urlIsReachable(url));
+    String response = BioJsHTMLOutput.getURLContentAsString(url);
+    AssertJUnit.assertNotNull("Null response read from url!", response);
+    BioJSRepositoryPojo repository = new BioJSRepositoryPojo(response);
+    System.out.println(">>> description : " + repository.getDescription());
+    System.out.println(">>> latest version : "
+            + repository.getLatestReleaseVersion());
+    System.out.println(">>> repo count : "
+            + repository.getReleases().size());
+    for (BioJSReleasePojo release : repository.getReleases())
+    {
+      System.out.println("repo type : " + release.getType());
+      System.out.println("url : " + release.getUrl());
+      System.out.println("release version : " + release.getVersion());
+    }
+  }
 
-    } catch (IOException e)
+  private static boolean urlIsReachable(String urlString)
+  {
+    try
     {
-      e.printStackTrace();
-    } catch (JSONException e)
+      final URL url = new URL(urlString);
+      final URLConnection conn = url.openConnection();
+      conn.connect();
+      return true;
+    } catch (MalformedURLException e)
     {
-      e.printStackTrace();
-    } catch (ParseException e)
+      throw new RuntimeException(e);
+    } catch (IOException e)
     {
-      e.printStackTrace();
+      return false;
     }
   }
-  
 }