From: Jim Procter <j.procter@dundee.ac.uk>
Date: Wed, 8 Sep 2021 11:37:00 +0000 (+0100)
Subject: JAL-3829 formatting
X-Git-Tag: Release_2_11_2_0~39^2~14
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=6a346718778d27d70b74a90f573ca5a1d3e32cc8;p=jalview.git

JAL-3829 formatting
---

diff --git a/test/jalview/fts/threedbeacons/TDBeaconsFTSRestClientTest.java b/test/jalview/fts/threedbeacons/TDBeaconsFTSRestClientTest.java
index fbf8539..91a3049 100644
--- a/test/jalview/fts/threedbeacons/TDBeaconsFTSRestClientTest.java
+++ b/test/jalview/fts/threedbeacons/TDBeaconsFTSRestClientTest.java
@@ -34,7 +34,7 @@ public class TDBeaconsFTSRestClientTest
     JvOptionPane.setInteractiveMode(false);
     JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
   }
-  
+
   private FTSRestClient ftsRestClient;
 
   @BeforeMethod(alwaysRun = true)
@@ -62,20 +62,22 @@ public class TDBeaconsFTSRestClientTest
   public void tearDown() throws Exception
   {
   }
-  
+
   @Test
   public void getAllDefaulDisplayedDataColumns()
-  {     
+  {
     // to change when resources.tdbeacons_data_columns.txt is changed
-    Assert.assertNotNull(ftsRestClient
-            .getAllDefaultDisplayedFTSDataColumns());
-    System.out.println(ftsRestClient.getAllDefaultDisplayedFTSDataColumns());
+    Assert.assertNotNull(
+            ftsRestClient.getAllDefaultDisplayedFTSDataColumns());
+    System.out
+            .println(ftsRestClient.getAllDefaultDisplayedFTSDataColumns());
     Assert.assertTrue(!ftsRestClient.getAllDefaultDisplayedFTSDataColumns()
             .isEmpty());
-    Assert.assertEquals(ftsRestClient
-            .getAllDefaultDisplayedFTSDataColumns().size(), 11);
+    Assert.assertEquals(
+            ftsRestClient.getAllDefaultDisplayedFTSDataColumns().size(),
+            11);
   }
-  
+
   @Test(groups = { "Functional" })
   public void getPrimaryKeyColumIndexTest()
   {
@@ -88,8 +90,8 @@ public class TDBeaconsFTSRestClientTest
       foundIndex = ftsRestClient.getPrimaryKeyColumIndex(wantedFields,
               false);
       Assert.assertEquals(foundIndex, 10);
-      foundIndex = ftsRestClient
-              .getPrimaryKeyColumIndex(wantedFields, true);
+      foundIndex = ftsRestClient.getPrimaryKeyColumIndex(wantedFields,
+              true);
       Assert.assertEquals(foundIndex, 11);
     } catch (Exception e)
     {
@@ -97,7 +99,7 @@ public class TDBeaconsFTSRestClientTest
       Assert.fail("Exception thrown while testing...");
     }
   }
-  
+
   @Test(groups = { "Functional" })
   public void getDataColumnsFieldsAsCommaDelimitedString()
   {
@@ -109,37 +111,37 @@ public class TDBeaconsFTSRestClientTest
     Assert.assertEquals(actual,
             "model_identifier,provider,model_category,uniprot_start,uniprot_end,resolution,qmean_avg_local_score,coverage,created,entry_name,model_url");
   }
-  
+
   @Test(groups = { "Functional" })
   public void getAllFTSDataColumns()
   {
     Collection<FTSDataColumnI> allFields = ftsRestClient
             .getAllFTSDataColumns();
     Assert.assertNotNull(allFields);
-    //System.out.println(allFields.size());
+    // System.out.println(allFields.size());
     Assert.assertEquals(allFields.size(), 15);
   }
-  
+
   @Test(groups = { "Functional" })
   public void getSearchableDataColumns()
-  {     
+  {
     // to change when resources.tdbeacons_data_columns.txt is changed
     Collection<FTSDataColumnI> searchableFields = ftsRestClient
             .getSearchableDataColumns();
     Assert.assertNotNull(searchableFields);
-    //System.out.println(searchableFields.size());
-    Assert.assertEquals(searchableFields.size(), 1); //only 1: uniprot accession
+    // System.out.println(searchableFields.size());
+    Assert.assertEquals(searchableFields.size(), 1); // only 1: uniprot
+                                                     // accession
   }
-  
+
   @Test(groups = { "Functional" })
   public void getPrimaryKeyColumn()
-  { 
+  {
     // to change when resources.tdbeacons_data_columns.txt is changed
     FTSDataColumnI expectedPKColumn;
     try
     {
-      expectedPKColumn = ftsRestClient
-              .getDataColumnByNameOrCode("Url");
+      expectedPKColumn = ftsRestClient.getDataColumnByNameOrCode("Url");
       Assert.assertNotNull(ftsRestClient.getPrimaryKeyColumn());
       Assert.assertEquals(ftsRestClient.getPrimaryKeyColumn(),
               expectedPKColumn);
@@ -149,7 +151,7 @@ public class TDBeaconsFTSRestClientTest
       Assert.fail("Exception thrown while testing...");
     }
   }
-  
+
   @Test(groups = { "Functional" })
   public void getDataColumnByNameOrCode()
   {
@@ -165,7 +167,7 @@ public class TDBeaconsFTSRestClientTest
       Assert.fail("Exception thrown while testing...");
     }
   }
-  
+
   @Test(groups = { "Functional" })
   public void getDataColumnGroupById()
   {
@@ -180,14 +182,15 @@ public class TDBeaconsFTSRestClientTest
       e.printStackTrace();
     }
   }
-  
+
   @Test(groups = { "Functional" })
   public void getDefaultResponsePageSize()
   {
     int defaultResSize = ftsRestClient.getDefaultResponsePageSize();
-    Assert.assertEquals(defaultResSize, 100); //why 100 or 500 ? pdb is 100, uniprot 500
+    Assert.assertEquals(defaultResSize, 100); // why 100 or 500 ? pdb is 100,
+                                              // uniprot 500
   }
-  
+
   @Test(groups = { "Functional" })
   public void getColumnMinWidthTest()
   {
@@ -205,7 +208,7 @@ public class TDBeaconsFTSRestClientTest
     }
   }
   // could add test for MaxWidth & PreferedWith
-  
+
   @Test(groups = { "Functional" })
   public void getColumnClassTest()
   {
@@ -226,7 +229,7 @@ public class TDBeaconsFTSRestClientTest
       Assert.fail("Exception thrown while testing...");
     }
   }
-  
+
   @Test(groups = { "Functional" })
   public void coverageForEqualsAndHashFunction()
   {
@@ -241,9 +244,9 @@ public class TDBeaconsFTSRestClientTest
       uniqueSet.add(foundCol);
     }
     Assert.assertTrue(!uniqueSet.isEmpty());
-    //Assert.assertEquals(uniqueSet.size(), 22); -> 1 or 2 currently for 3DB
+    // Assert.assertEquals(uniqueSet.size(), 22); -> 1 or 2 currently for 3DB
   }
-  
+
   @Test(groups = { "Functional" })
   public void getTDBIdColumIndexTest()
   {
@@ -264,8 +267,8 @@ public class TDBeaconsFTSRestClientTest
     {
       assertEquals(4, TDBeaconsFTSRestClient.getInstance()
               .getPrimaryKeyColumIndex(wantedFields, true));
-//      assertEquals(3, TDBeaconsFTSRestClient.getInstance()
-//              .getPrimaryKeyColumIndex(wantedFields, true));
+      // assertEquals(3, TDBeaconsFTSRestClient.getInstance()
+      // .getPrimaryKeyColumIndex(wantedFields, true));
     } catch (Exception e)
     {
       e.printStackTrace();
@@ -337,25 +340,27 @@ public class TDBeaconsFTSRestClientTest
     // check 404 behaviour
     request.setSearchTerm("P00000.json");
 
+    try
+    {
+      response = TDBeaconsFTSRestClient.getInstance()
+              .executeRequest(request);
 
-    try {
-      response = TDBeaconsFTSRestClient.getInstance().executeRequest(request);
-      
       assertNull(response);
     } catch (Exception e)
     {
       e.printStackTrace();
       Assert.fail("Unexpected failure during mock 3DBeacons 404 test");
     }
-     
+
     // check 200 behaviour
     request.setSearchTerm("P38398.json");
     System.out.println("request : " + request.getFieldToSearchBy());
-    //System.out.println(request.toString());
+    // System.out.println(request.toString());
 
     try
     {
-      response = TDBeaconsFTSRestClient.getInstance().executeRequest(request);
+      response = TDBeaconsFTSRestClient.getInstance()
+              .executeRequest(request);
     } catch (Exception e)
     {
       e.printStackTrace();
@@ -363,13 +368,13 @@ public class TDBeaconsFTSRestClientTest
       return;
     }
     assertTrue(response.getSearchSummary() != null);
-    assertTrue(response.getNumberOfItemsFound() > 3); //4 atm
+    assertTrue(response.getNumberOfItemsFound() > 3); // 4 atm
     System.out.println("Search summary : \n" + response.getSearchSummary());
-    
-    //System.out.println(response.getSearchSummary().size());
+
+    // System.out.println(response.getSearchSummary().size());
   }
 
-  @Test(groups = { "External", "Network" })  
+  @Test(groups = { "External", "Network" })
   public void executeRequestTest()
   {
     List<FTSDataColumnI> wantedFields = new ArrayList<FTSDataColumnI>();
@@ -401,12 +406,13 @@ public class TDBeaconsFTSRestClientTest
     request.setSearchTerm("P01318.json");
     request.setWantedFields(wantedFields);
     System.out.println("request : " + request.getFieldToSearchBy());
-    //System.out.println(request.toString());
+    // System.out.println(request.toString());
 
     FTSRestResponse response;
     try
     {
-      response = TDBeaconsFTSRestClient.getInstance().executeRequest(request);
+      response = TDBeaconsFTSRestClient.getInstance()
+              .executeRequest(request);
     } catch (Exception e)
     {
       e.printStackTrace();
@@ -414,8 +420,8 @@ public class TDBeaconsFTSRestClientTest
       return;
     }
     assertTrue(response.getSearchSummary() != null);
-    assertTrue(response.getNumberOfItemsFound() > 3); //4 atm
+    assertTrue(response.getNumberOfItemsFound() > 3); // 4 atm
     System.out.println("Search summary : \n" + response.getSearchSummary());
-    //System.out.println(response.getSearchSummary().size());
+    // System.out.println(response.getSearchSummary().size());
   }
 }