X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2FAppletFormatAdapter.java;h=5f228fb79e3bd7711952f60393a39f3e224196e4;hb=4f24ef0848cf3c43ba0467f31fce1baa5c57aad5;hp=dca2d0c4759d47a67efc24385bc047586f5adac7;hpb=8d3d3b4edf47e543b8b352c1b2c247cfc59122a4;p=jalview.git

diff --git a/src/jalview/io/AppletFormatAdapter.java b/src/jalview/io/AppletFormatAdapter.java
index dca2d0c..5f228fb 100755
--- a/src/jalview/io/AppletFormatAdapter.java
+++ b/src/jalview/io/AppletFormatAdapter.java
@@ -50,6 +50,12 @@
             formats.addElement("PFAM");
         }
 
+
+        public static String FILE = "File";
+        public static String URL = "URL";
+        public static String PASTE = "Paste";
+        public static String CLASSLOADER = "ClassLoader";
+
         AlignFile afile = null;
 
         /**
@@ -94,6 +100,11 @@
                 {
                     afile = new PfamFile(inFile, type);
                 }
+                else if (format.equals("JnetFile"))
+                {
+                  afile = new JPredFile(inFile, type);
+                  ((JPredFile)afile).removeNonSequences();
+                }
 
                 return afile.getSeqsAsArray();
             }