X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=forester%2Fjava%2Fsrc%2Forg%2Fforester%2Fsequence%2FSequence.java;h=3e2473a76ed703c3ac10643bee1e4f86f248f235;hb=eae9b4d545845ccc94c1465c1664086b22188ad1;hp=b794af92952ecd67306ad53ccb9c8e14bb48f1d3;hpb=eee996a6476a1e3d84c07f8f690dcde3ff4b2ef5;p=jalview.git

diff --git a/forester/java/src/org/forester/sequence/Sequence.java b/forester/java/src/org/forester/sequence/Sequence.java
index b794af9..3e2473a 100644
--- a/forester/java/src/org/forester/sequence/Sequence.java
+++ b/forester/java/src/org/forester/sequence/Sequence.java
@@ -22,7 +22,7 @@
 // Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
 //
 // Contact: phylosoft @ gmail . com
-// WWW: www.phylosoft.org/forester
+// WWW: https://sites.google.com/site/cmzmasek/home/software/forester
 
 package org.forester.sequence;
 
@@ -37,12 +37,16 @@ public interface Sequence {
     static final String        DNA_REGEXP      = "[^ACGTRYMKWSN\\-\\*]";
     static final String        RNA_REGEXP      = "[^ACGURYMKWSN\\-\\*]";
 
-    public abstract Object getIdentifier();
+    public abstract String getIdentifier();
 
     public abstract int getLength();
 
+    public abstract int getNumberOfGapResidues();
+
     public abstract char[] getMolecularSequence();
 
+    public abstract String getMolecularSequenceAsString();
+
     public abstract char getResidueAt( final int position );
 
     public abstract TYPE getType();