X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2FAppletFormatAdapter.java;h=2243a5c9f6ed034f8d8d158d9b54aa19abf5cc7a;hb=82a6c8e2e25b7534168b68b2c89b9cf195f815a5;hp=fca726359ae9a1002f038f869f214b5221ac61f0;hpb=1811f4469c23e9cce0a72649e17b634f60f9fbe0;p=jalview.git

diff --git a/src/jalview/io/AppletFormatAdapter.java b/src/jalview/io/AppletFormatAdapter.java
index fca7263..2243a5c 100755
--- a/src/jalview/io/AppletFormatAdapter.java
+++ b/src/jalview/io/AppletFormatAdapter.java
@@ -26,6 +26,7 @@ import jalview.datamodel.Alignment;
 import jalview.datamodel.AlignmentAnnotation;
 import jalview.datamodel.AlignmentI;
 import jalview.datamodel.AlignmentView;
+import jalview.datamodel.PDBEntry.Type;
 import jalview.structure.StructureImportSettings;
 import jalview.util.MessageManager;
 
@@ -281,8 +282,8 @@ public class AppletFormatAdapter
         // TODO obtain config value from preference settings.
         // Set value to 'true' to test PDB processing with Jmol: JAL-1213
         boolean isParseWithJMOL = StructureImportSettings
-                .getDefaultPDBFileParser().equalsIgnoreCase(
-                        StructureImportSettings.JMOL_PARSER);
+                .getDefaultPDBFileParser()
+                .equals(StructureImportSettings.StructureParser.JMOL_PARSER);
         if (isParseWithJMOL)
         {
           StructureImportSettings.addSettings(annotFromStructure,
@@ -450,8 +451,7 @@ public class AppletFormatAdapter
           alignFile = new MCview.PDBfile(annotFromStructure,
                   localSecondaryStruct, serviceSecondaryStruct, source);
         }
-        ((StructureFile) alignFile)
-                .setDbRefType(StructureImportSettings.PDB);
+        ((StructureFile) alignFile).setDbRefType(Type.PDB);
       }
       else if (format.equals("mmCIF"))
       {
@@ -459,8 +459,7 @@ public class AppletFormatAdapter
                 localSecondaryStruct, serviceSecondaryStruct);
         alignFile = new jalview.ext.jmol.JmolParser(annotFromStructure,
                 localSecondaryStruct, serviceSecondaryStruct, source);
-        ((StructureFile) alignFile)
-                .setDbRefType(StructureImportSettings.MMCIF);
+        ((StructureFile) alignFile).setDbRefType(Type.MMCIF);
       }
       else if (format.equals("STH"))
       {