Merge branch 'develop' into update_212_Dec_merge_with_21125_chamges

[jalview.git] / src / jalview / ws / sifts / SiftsClient.java

diff --git a/src/jalview/ws/sifts/SiftsClient.java b/src/jalview/ws/sifts/SiftsClient.java
index 4af4157..892ebd8 100644 (file)
--- a/src/jalview/ws/sifts/SiftsClient.java
+++ b/src/jalview/ws/sifts/SiftsClient.java
@@ -256,7 +256,7 @@ public class SiftsClient implements SiftsClientI
       // The line below is required for unit testing... don't comment it out!!!
       System.out.println(">>> SIFTS File already downloaded for " + pdbId);
 
-      if (isFileOlderThanThreshold(siftsFile,
+      if (Platform.isFileOlderThanThreshold(siftsFile,
               SiftsSettings.getCacheThresholdInDays()))
       {
         File oldSiftsFile = new File(siftsFileName + "_old");
@@ -426,8 +426,8 @@ public class SiftsClient implements SiftsClientI
                 .getMapRegion();
         for (MapRegion mapRegion : mapRegions)
         {
-          accessions
-                  .add(mapRegion.getDb().getDbAccessionId().toLowerCase(Locale.ROOT));
+          accessions.add(mapRegion.getDb().getDbAccessionId()
+                  .toLowerCase(Locale.ROOT));
         }
       }
     }
@@ -497,9 +497,11 @@ public class SiftsClient implements SiftsClientI
     HashSet<String> dbRefAccessionIdsString = new HashSet<String>();
     for (DBRefEntry dbref : seq.getDBRefs())
     {
-      dbRefAccessionIdsString.add(dbref.getAccessionId().toLowerCase(Locale.ROOT));
+      dbRefAccessionIdsString
+              .add(dbref.getAccessionId().toLowerCase(Locale.ROOT));
     }
-    dbRefAccessionIdsString.add(sourceDBRef.getAccessionId().toLowerCase(Locale.ROOT));
+    dbRefAccessionIdsString
+            .add(sourceDBRef.getAccessionId().toLowerCase(Locale.ROOT));
 
     curDBRefAccessionIdsString = dbRefAccessionIdsString;
     curSourceDBRef = sourceDBRef.getAccessionId();
@@ -859,7 +861,8 @@ public class SiftsClient implements SiftsClientI
   {
     boolean isStrictMatch = true;
     return isStrictMatch ? curSourceDBRef.equalsIgnoreCase(accession)
-            : curDBRefAccessionIdsString.contains(accession.toLowerCase(Locale.ROOT));
+            : curDBRefAccessionIdsString
+                    .contains(accession.toLowerCase(Locale.ROOT));
   }
 
   private boolean isFoundInSiftsEntry(String accessionId)