Merge branch 'develop' into task/JAL-2196pdbeProperties

[jalview.git] / src / jalview / ws / dbsources / Pdb.java

diff --git a/src/jalview/ws/dbsources/Pdb.java b/src/jalview/ws/dbsources/Pdb.java
index a50ed14..11fe95e 100644 (file)
--- a/src/jalview/ws/dbsources/Pdb.java
+++ b/src/jalview/ws/dbsources/Pdb.java
@@ -1,4 +1,3 @@
-
 /*
  * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
  * Copyright (C) $$Year-Rel$$ The Jalview Authors
@@ -47,9 +46,10 @@ import com.stevesoft.pat.Regex;
 public class Pdb extends EbiFileRetrievedProxy
 {
   private static final String SEPARATOR = "|";
+
   private static final String COLON = ":";
-  private static final int PDB_ID_LENGTH = 4;
 
+  private static final int PDB_ID_LENGTH = 4;
 
   public Pdb()
   {
@@ -140,10 +140,10 @@ public class Pdb extends EbiFileRetrievedProxy
     String ext = StructureImportSettings.getDefaultStructureFileFormat()
             .equalsIgnoreCase(Type.MMCIF.toString()) ? ".cif" : ".xml";
     EBIFetchClient ebi = new EBIFetchClient();
-    file = ebi.fetchDataAsFile("pdb:" + id,
-            StructureImportSettings.getDefaultStructureFileFormat().toLowerCase(),
-            ext)
-            .getAbsolutePath();
+    file = ebi.fetchDataAsFile(
+            "pdb:" + id,
+            StructureImportSettings.getDefaultStructureFileFormat()
+                    .toLowerCase(), ext).getAbsolutePath();
     stopQuery();
     if (file == null)
     {
@@ -177,8 +177,8 @@ public class Pdb extends EbiFileRetrievedProxy
           {
             // FIXME seems to result in 'PDB|1QIP|1qip|A' - 1QIP is redundant.
             // TODO: suggest simplify naming to 1qip|A as default name defined
-            pdbcs.setName(jalview.datamodel.DBRefSource.PDB + SEPARATOR + id
-                    + SEPARATOR + pdbcs.getName());
+            pdbcs.setName(jalview.datamodel.DBRefSource.PDB + SEPARATOR
+                    + id + SEPARATOR + pdbcs.getName());
             // Might need to add more metadata to the PDBEntry object
             // like below
             /*
@@ -269,7 +269,6 @@ public class Pdb extends EbiFileRetrievedProxy
     return 0;
   }
 
-
   /**
    * Returns a descriptor for suitable feature display settings with
    * <ul>