JAL-4020 Added search for PyMOLWinWithConsole.bat (and PyMOLWin.exe) in likely places...

[jalview.git] / src / jalview / io / ClustalFile.java

diff --git a/src/jalview/io/ClustalFile.java b/src/jalview/io/ClustalFile.java
index a37afd9..afb2009 100755 (executable)
--- a/src/jalview/io/ClustalFile.java
+++ b/src/jalview/io/ClustalFile.java
@@ -77,7 +77,9 @@ public class ClustalFile extends AlignFile
         {
           top = true;
         }
-        if (line.indexOf(" ") != 0)
+        boolean isConservation = line.startsWith(SPACE)
+                || line.startsWith(TAB);
+        if (!isConservation)
         {
           str = new StringTokenizer(line);