X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=forester%2Fjava%2Fsrc%2Forg%2Fforester%2Futil%2FForesterConstants.java;h=727f30c921e0ffae38ecfc0a3b6ba14dd9dcde98;hb=5bae4861f59350b3158d6ebd5034ea7698d81b98;hp=9f4a241bb0bea793c2f7dabd8cbcc18de78acc8d;hpb=03e7c823c2f9f2b9766bf486a164a8eec69d5214;p=jalview.git

diff --git a/forester/java/src/org/forester/util/ForesterConstants.java b/forester/java/src/org/forester/util/ForesterConstants.java
index 9f4a241..727f30c 100644
--- a/forester/java/src/org/forester/util/ForesterConstants.java
+++ b/forester/java/src/org/forester/util/ForesterConstants.java
@@ -27,22 +27,25 @@ package org.forester.util;
 
 public final class ForesterConstants {
 
-    public final static String  FORESTER_VERSION            = "1.045";
-    public final static String  FORESTER_DATE               = "161214";
-    public final static String  PHYLO_XML_VERSION           = "1.20";
-    public final static String  PHYLO_XML_LOCATION          = "http://www.phyloxml.org";
-    public final static String  PHYLO_XML_XSD               = "phyloxml.xsd";
-    public final static String  XML_SCHEMA_INSTANCE         = "http://www.w3.org/2001/XMLSchema-instance";
-    public final static String  LOCAL_PHYLOXML_XSD_RESOURCE = "resources/phyloxml.xsd";
-    public final static String  PHYLO_XML_SUFFIX            = ".xml";
-    public final static String  UTF_8 = "UTF-8";
-    public final static String  ISO_8859_1 = "ISO-8859-1";
-    public final static String  PHYLO_XML_REFERENCE         = "Han MV and Zmasek CM (2009): \"phyloXML: XML for evolutionary biology and comparative genomics\", BMC Bioinformatics 10:356";
-    public final static boolean RELEASE                     = false;
+    public final static String  FORESTER_VERSION                = "1.045";
+    public final static String  FORESTER_DATE                   = "161214";
+    public final static String  PHYLO_XML_VERSION               = "1.20";
+    public final static String  PHYLO_XML_LOCATION              = "http://www.phyloxml.org";
+    public final static String  PHYLO_XML_XSD                   = "phyloxml.xsd";
+    public final static String  XML_SCHEMA_INSTANCE             = "http://www.w3.org/2001/XMLSchema-instance";
+    public final static String  LOCAL_PHYLOXML_XSD_RESOURCE     = "resources/phyloxml.xsd";
+    public final static String  PHYLO_XML_SUFFIX                = ".xml";
+    public final static String  ID_NORMALIZED_FASTA_FILE_SUFFIX = "_ni.fasta";
+    public final static String  ID_MAP_FILE_SUFFIX              = ".nim";
+    public final static String  UTF_8                           = "UTF-8";
+    public final static String  ISO_8859_1                      = "ISO-8859-1";
+    public final static String  PHYLO_XML_REFERENCE             = "Han MV and Zmasek CM (2009): \"phyloXML: XML for evolutionary biology and comparative genomics\", BMC Bioinformatics 10:356";
+    public final static boolean RELEASE                         = false;
 
     public enum PhylogeneticTreeFormats {
-        NH, NHX, NEXUS, PHYLOXML
+                                         NH,
+                                         NHX,
+                                         NEXUS,
+                                         PHYLOXML
     }
-
-  
 }